RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12797
(66 letters)
>gnl|CDD|238365 cd00713, GltS, Glutamine amidotransferases class-II (Gn-AT),
glutamate synthase (GltS)-type. GltS is a homodimer that
synthesizes L-glutamate from 2-oxoglutarate and
L-glutamine, an important step in ammonia assimilation
in bacteria, cyanobacteria and plants. The N-terminal
glutaminase domain catalyzes the hydrolysis of glutamine
to glutamic acid and ammonia, and has a fold similar to
that of other glutamine amidotransferases such as
glucosamine-fructose 6-phosphate synthase (GLMS or
GFAT), glutamine phosphoribosylpyrophosphate (Prpp)
amidotransferase (GPATase), asparagine synthetase B
(AsnB), and beta lactam synthetase (beta-LS), as well as
the Ntn hydrolase folds of the proteasomal alpha and
beta subunits.
Length = 413
Score = 92.2 bits (230), Expect = 4e-24
Identities = 27/67 (40%), Positives = 40/67 (59%), Gaps = 2/67 (2%)
Query: 2 RQVFLTGKQ--DEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKGQFTADQLW 59
QVF+ D E F+R++Y+LRK I + FY+CSLS+R +VYKG +QL
Sbjct: 129 EQVFVGAPSGDDGEAFERKLYLLRKRIEKAIRAADEDFYVCSLSSRTIVYKGMLLPEQLG 188
Query: 60 KYFTDLN 66
+++ DL
Sbjct: 189 QFYPDLQ 195
>gnl|CDD|223145 COG0067, GltB, Glutamate synthase domain 1 [Amino acid transport
and metabolism].
Length = 371
Score = 63.5 bits (155), Expect = 7e-14
Identities = 22/66 (33%), Positives = 40/66 (60%), Gaps = 5/66 (7%)
Query: 1 MRQVFLTGKQDEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKGQFTADQLWK 60
+ QVF+ ++F+R +++ RK +I G FY+CSLS+R +VYKG + + +
Sbjct: 136 IEQVFIG--ASGDDFERVLFIARKRIEKRI---GADFYVCSLSSRTIVYKGVGLPEDVAE 190
Query: 61 YFTDLN 66
++ DL+
Sbjct: 191 FYLDLD 196
>gnl|CDD|236968 PRK11750, gltB, glutamate synthase subunit alpha; Provisional.
Length = 1485
Score = 49.9 bits (120), Expect = 4e-09
Identities = 20/65 (30%), Positives = 38/65 (58%), Gaps = 3/65 (4%)
Query: 3 QVFLTG--KQDEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKGQFTADQLWK 60
QVF+ E +F+R++++ R+ ++ + FY+CSLSN +++YKG L +
Sbjct: 142 QVFVNAPAGWRERDFERRLFIARRRIEKRLAD-DKDFYVCSLSNLVIIYKGLMMPADLPR 200
Query: 61 YFTDL 65
++ DL
Sbjct: 201 FYLDL 205
>gnl|CDD|234155 TIGR03282, methan_mark_13, putative methanogenesis marker 13
metalloprotein. Members of this protein family, to
date, are found in a completed prokaryotic genome if and
only if the species is one of the archaeal methanogens.
The exact function is unknown, but likely is linked to
methanogenesis or a process closely connected to it.
This metal cluster-binding family is related to
nitrogenase structural protein NifD and accessory
protein NifE, among others [Energy metabolism,
Methanogenesis].
Length = 352
Score = 27.0 bits (60), Expect = 0.50
Identities = 7/14 (50%), Positives = 11/14 (78%)
Query: 11 DEEEFKRQIYVLRK 24
DE+E +RQ +L+K
Sbjct: 137 DEDEVERQKELLKK 150
>gnl|CDD|178074 PLN02455, PLN02455, fructose-bisphosphate aldolase.
Length = 358
Score = 26.3 bits (58), Expect = 1.0
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 4 VFLTGKQDEEEFKRQIYVLRKVSTHK 29
VFL+G Q EEE + + K+ T K
Sbjct: 263 VFLSGGQSEEEATLNLNAMNKLKTLK 288
>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 = 26.1 bits (58), Expect = 1.0
Identities = 16/49 (32%), Positives = 19/49 (38%), Gaps = 10/49 (20%)
Query: 12 EEEFKRQIYVLRKVSTHK-IPKPGQRFYICSLSNRIVVYKGQFTADQLW 59
EEE K + +LRK S H I FY + DQLW
Sbjct: 46 EEEIKEEYNILRKYSNHPNIA----TFYGAFIKKNPPG-----NDDQLW 85
>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 = 25.7 bits (57), Expect = 1.4
Identities = 13/70 (18%), Positives = 28/70 (40%), Gaps = 13/70 (18%)
Query: 9 KQDEEEFKRQIYVLRKVSTHKIPKP------GQRFYI-------CSLSNRIVVYKGQFTA 55
EE R+I +L+K++ I K Y+ SL + + +G+ +
Sbjct: 32 SSLLEELLREIEILKKLNHPNIVKLYGVFEDENHLYLVMEYCEGGSLKDLLKENEGKLSE 91
Query: 56 DQLWKYFTDL 65
D++ + +
Sbjct: 92 DEILRILLQI 101
>gnl|CDD|214659 smart00433, TOP2c, TopoisomeraseII. Eukaryotic DNA topoisomerase
II, GyrB, ParE.
Length = 594
Score = 26.0 bits (58), Expect = 1.5
Identities = 9/19 (47%), Positives = 11/19 (57%), Gaps = 2/19 (10%)
Query: 49 YK--GQFTADQLWKYFTDL 65
YK G+ ADQLW+ D
Sbjct: 536 YKGLGEMNADQLWETTMDP 554
>gnl|CDD|224682 COG1768, COG1768, Predicted phosphohydrolase [General function
prediction only].
Length = 230
Score = 25.9 bits (57), Expect = 1.6
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 10 QDEEEFKRQIYVLRKVSTHKIPKPGQRF 37
QDE+ F R+I LR + +PK +F
Sbjct: 134 QDEKIFLREIGRLRLSADAALPKGVSKF 161
>gnl|CDD|132967 cd06636, STKc_MAP4K4_6, Catalytic domain of the Protein
Serine/Threonine Kinases, Mitogen-Activated Protein
Kinase Kinase Kinase Kinase 4 and 6. Serine/threonine
kinases (STKs), mitogen-activated protein kinase (MAPK)
kinase kinase kinase 4 (MAPKKKK4 or MAP4K4) and
MAPKKKK6 (or MAP4K6) subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl
group from ATP to serine/threonine residues on protein
substrates. The MAP4K4/MAP4K6 subfamily is part of a
larger superfamily that includes the catalytic domains
of other protein STKs, protein tyrosine kinases, RIO
kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase. Members of this
subfamily contain an N-terminal catalytic domain and a
C-terminal citron homology (CNH) regulatory domain.
MAP4Ks (or MAPKKKKs) are involved in MAPK signaling
pathways that are important in mediating cellular
responses to extracellular signals by activating a MAPK
kinase kinase (MAPKKK or MAP3K or MKKK). Each MAPK
cascade is activated either by a small GTP-binding
protein or by an adaptor protein, which transmits the
signal either directly to a MAP3K to start the triple
kinase core cascade or indirectly through a mediator
kinase, a MAP4K. MAP4K4 is also called Nck Interacting
kinase (NIK). It facilitates the activation of the
MAPKs, extracellular signal-regulated kinase (ERK) 1,
ERK2, and c-Jun N-terminal kinase (JNK), by
phosphorylating and activating MEKK1. MAP4K4 plays a
role in tumor necrosis factor (TNF) alpha-induced
insulin resistance. MAP4K4 silencing in skeletal muscle
cells from type II diabetic patients restores
insulin-mediated glucose uptake. MAP4K4, through JNK,
also plays a broad role in cell motility, which impacts
inflammation, homeostasis, as well as the invasion and
spread of cancer. MAP4K4 is found to be highly
expressed in most tumor cell lines relative to normal
tissue. MAP4K6 (also called MINK for
Misshapen/NIKs-related kinase) is activated after Ras
induction and mediates activation of p38 MAPK. MAP4K6
plays a role in cell cycle arrest, cytoskeleton
organization, cell adhesion, and cell motility.
Length = 282
Score = 25.3 bits (55), Expect = 2.2
Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 22/58 (37%)
Query: 9 KQDEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKGQFTA-------DQLW 59
+ +EEE K +I +L+K S H+ I Y G F DQLW
Sbjct: 53 EDEEEEIKLEINMLKKYSHHR---------------NIATYYGAFIKKSPPGHDDQLW 95
>gnl|CDD|223265 COG0187, GyrB, Type IIA topoisomerase (DNA gyrase/topo II,
topoisomerase IV), B subunit [DNA replication,
recombination, and repair].
Length = 635
Score = 25.2 bits (56), Expect = 2.3
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 18/58 (31%)
Query: 11 DEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKG--QFTADQLWKYFTDLN 66
D+EE ++ + L K ++I QR YKG + DQLW+ D
Sbjct: 548 DDEELEKLLERLGKKKGYEI----QR------------YKGLGEMNPDQLWETTMDPE 589
>gnl|CDD|100023 cd06059, Tubulin, The tubulin superfamily includes five distinct
families, the alpha-, beta-, gamma-, delta-, and
epsilon-tubulins and a sixth family (zeta-tubulin) which
is present only in kinetoplastid protozoa. The alpha-
and beta-tubulins are the major components of
microtubules, while gamma-tubulin plays a major role in
the nucleation of microtubule assembly. The delta- and
epsilon-tubulins are widespread but unlike the alpha,
beta, and gamma-tubulins they are not ubiquitous among
eukaryotes. The alpha/beta-tubulin heterodimer is the
structural subunit of microtubules. The alpha- and
beta-tubulins share 40% amino-acid sequence identity,
exist in several isotype forms, and undergo a variety of
posttranslational modifications. The structures of
alpha- and beta-tubulin are basically identical: each
monomer is formed by a core of two beta-sheets
surrounded by alpha-helices. The monomer structure is
very compact, but can be divided into three regions
based on function: the amino-terminal nucleotide-binding
region, an intermediate taxol-binding region and the
carboxy-terminal region which probably constitutes the
binding surface for motor proteins. Also included in
this group is the mitochondrial Misato/DML1 protein
family, involved in mitochondrial fusion and in
mitochondrial distribution and morphology.
Length = 382
Score = 24.5 bits (54), Expect = 4.4
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 22 LRKVSTHKIPKPGQRFYICSLS 43
LRK++T+ +P P F S +
Sbjct: 209 LRKLATNLVPFPRLHFLTPSFA 230
>gnl|CDD|132968 cd06637, STKc_TNIK, Catalytic domain of the Protein
Serine/Threonine Kinase, Traf2- and Nck-interacting
kinase. Serine/threonine kinases (STKs), Traf2- and
Nck-interacting kinase (TNIK) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The TNIK subfamily is
part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. Members of this subfamily
contain an N-terminal catalytic domain and a C-terminal
citron homology (CNH) regulatory domain, similar to
mitogen-activated protein kinase (MAPK), kinase kinase
kinase 4 (MAP4K4), and MAP4K6. MAP4Ks participate in
some MAPK signaling pathways by activating a MAPK
kinase kinase (MAPKKK or MAP3K or MKKK). TNIK is an
effector of Rap2, a small GTP-binding protein from the
Ras family. TNIK specifically activates the c-Jun
N-terminal kinase (JNK) pathway and plays a role in
regulating the actin cytoskeleton.
Length = 272
Score = 24.7 bits (53), Expect = 4.8
Identities = 17/56 (30%), Positives = 23/56 (41%), Gaps = 22/56 (39%)
Query: 11 DEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKGQFTA-------DQLW 59
+EEE K++I +L+K S H+ I Y G F DQLW
Sbjct: 45 EEEEIKQEINMLKKYSHHR---------------NIATYYGAFIKKNPPGMDDQLW 85
>gnl|CDD|236408 PRK09200, PRK09200, preprotein translocase subunit SecA; Reviewed.
Length = 790
Score = 24.1 bits (53), Expect = 6.2
Identities = 11/32 (34%), Positives = 18/32 (56%), Gaps = 6/32 (18%)
Query: 7 TGKQDEEEFKRQIYVLRKVSTHKIP--KPGQR 36
T K +E+EF ++Y + V +IP +P R
Sbjct: 372 TAKTEEKEF-FEVYNMEVV---QIPTNRPIIR 399
>gnl|CDD|140341 PTZ00320, PTZ00320, ribosomal protein L14; Provisional.
Length = 188
Score = 24.2 bits (52), Expect = 6.3
Identities = 10/22 (45%), Positives = 16/22 (72%), Gaps = 1/22 (4%)
Query: 24 KVSTHKIPKPGQRFYICSLSNR 45
+VS H++ KPG +++C LS R
Sbjct: 112 EVSRHRV-KPGNIYWVCLLSRR 132
>gnl|CDD|221514 pfam12297, EVC2_like, Ellis van Creveld protein 2 like protein.
This family of proteins is found in eukaryotes. Proteins
in this family are typically between 571 and 1310 amino
acids in length. There are two conserved sequence
motifs: LPA and ELH. EVC2 is implicated in Ellis van
Creveld chondrodysplastic dwarfism in humans. Mutations
in this protein can give rise to this congenital
condition. LIMBIN is a protein which shares around 80%
sequence homology with EVC2 and it is implicated in a
similar condition in bovine chondrodysplastic dwarfism.
Length = 429
Score = 24.0 bits (52), Expect = 6.5
Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 3 QVFLTGKQDEEEFK--RQIYVLRKVSTHKI 30
Q L +Q+E+ K RQ+ V ++V H I
Sbjct: 279 QRSLLLQQEEDFAKAHRQLAVFQRVELHSI 308
>gnl|CDD|236626 PRK09814, PRK09814, beta-1,6-galactofuranosyltransferase;
Provisional.
Length = 333
Score = 23.8 bits (52), Expect = 7.9
Identities = 5/24 (20%), Positives = 11/24 (45%)
Query: 41 SLSNRIVVYKGQFTADQLWKYFTD 64
++ + YKG F ++L +
Sbjct: 203 LENSANISYKGWFDPEELPNELSK 226
>gnl|CDD|173770 cd08528, STKc_Nek10, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene A-related
kinase 10. Serine/Threonine Kinases (STKs), Never In
Mitosis gene A (NIMA)-related kinase 10 (Nek10)
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Nek10 subfamily is one of a family of 11 different Neks
(Nek1-11) that are involved in cell cycle control. The
Nek family is part of a larger superfamily that includes
the catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. No function has yet been ascribed to Nek10.
The gene encoding Nek10 is a putative causative gene for
breast cancer; it is located within a breast cancer
susceptibility loci on chromosome 3p24.
Length = 269
Score = 23.6 bits (51), Expect = 8.7
Identities = 13/60 (21%), Positives = 20/60 (33%), Gaps = 10/60 (16%)
Query: 16 KRQIYVLRKVSTHKIPKPGQRFYI-------CSLSNRIVVYK---GQFTADQLWKYFTDL 65
K Q+ V +K R YI L K +FT +++W F +
Sbjct: 63 KEQLRHPNIVRYYKTFLENDRLYIVMDLIEGAPLGEHFNSLKEKKQRFTEERIWNIFVQM 122
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
0.325 0.140 0.424
Gapped
Lambda K H
0.267 0.0803 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,388,150
Number of extensions: 238153
Number of successful extensions: 307
Number of sequences better than 10.0: 1
Number of HSP's gapped: 306
Number of HSP's successfully gapped: 18
Length of query: 66
Length of database: 10,937,602
Length adjustment: 37
Effective length of query: 29
Effective length of database: 9,296,504
Effective search space: 269598616
Effective search space used: 269598616
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.1 bits)