RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14771
(64 letters)
>gnl|CDD|206744 cd11384, RagA_like, Rag GTPase, subfamily of Ras-related GTPases,
includes Ras-related GTP-binding proteins A and B. RagA
and RagB are closely related Rag GTPases (ras-related
GTP-binding protein A and B) that constitute a unique
subgroup of the Ras superfamily, and are functional
homologs of Saccharomyces cerevisiae Gtr1. These domains
function by forming heterodimers with RagC or RagD, and
similarly, Gtr1 dimerizes with Gtr2, through the
carboxy-terminal segments. They play an essential role
in regulating amino acid-induced target of rapamycin
complex 1 (TORC1) kinase signaling, exocytic cargo
sorting at endosomes, and epigenetic control of gene
expression. In response to amino acids, the Rag GTPases
guide the TORC1 complex to activate the platform
containing Rheb proto-oncogene by driving the
relocalization of mTORC1 from discrete locations in the
cytoplasm to a late endosomal and/or lysosomal
compartment that is Rheb-enriched and contains Rab-7.
Length = 286
Score = 85.0 bits (211), Expect = 5e-22
Identities = 35/45 (77%), Positives = 37/45 (82%), Gaps = 2/45 (4%)
Query: 2 DGDEVLLFERATFLVISHCQRKE--HRDIHRFEKISNIIKQFKLS 44
+ DEV+LFERATFLVISH RKE D HRFEKISNIIKQFKLS
Sbjct: 191 EADEVVLFERATFLVISHSSRKEASALDPHRFEKISNIIKQFKLS 235
>gnl|CDD|218203 pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserved region. GTR1
was first identified in S. cerevisiae as a suppressor of
a mutation in RCC1. Biochemical analysis revealed that
Gtr1 is in fact a G protein of the Ras family. The
RagA/B proteins are the human homologues of Gtr1.
Included in this family is the human Rag C, a novel
protein that has been shown to interact with RagA/B.
Length = 230
Score = 52.2 bits (126), Expect = 4e-10
Identities = 19/38 (50%), Positives = 24/38 (63%)
Query: 1 MDGDEVLLFERATFLVISHCQRKEHRDIHRFEKISNII 38
+ +EV LFER+TFLVI+ R R+EK SNII
Sbjct: 193 SNAEEVFLFERSTFLVIATDSRSPVDIPQRYEKCSNII 230
>gnl|CDD|171793 PRK12880, PRK12880, 3-oxoacyl-(acyl carrier protein) synthase III;
Reviewed.
Length = 353
Score = 29.2 bits (65), Expect = 0.093
Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 11/71 (15%)
Query: 1 MDGDEV----LLFERATFLVISHCQRKEHRDI--HRFEK-----ISNIIKQFKLSSKWLP 49
MDG + L E +F I + + +DI H F + + I ++ KL+ +P
Sbjct: 231 MDGANIFNMALECEPKSFKEILEFSKVDEKDIAFHLFHQSNAYLVDCIKEELKLNDDKVP 290
Query: 50 RFIQWKYATLS 60
FI KYA LS
Sbjct: 291 NFIMEKYANLS 301
>gnl|CDD|221854 pfam12920, TcdA_TcdB_pore, TcdA/TcdB pore forming domain. This
family represents the most conserved region within the
C. difficile Toxin A and Toxin B pore forming region.
Length = 654
Score = 25.4 bits (56), Expect = 2.5
Identities = 7/25 (28%), Positives = 12/25 (48%), Gaps = 1/25 (4%)
Query: 28 IHRFEK-ISNIIKQFKLSSKWLPRF 51
RF ++ + ++ L WLP F
Sbjct: 2 GERFSDALTRLKQENNLDEHWLPLF 26
>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 = 24.9 bits (55), Expect = 2.8
Identities = 9/19 (47%), Positives = 11/19 (57%), Gaps = 4/19 (21%)
Query: 19 HCQRKEHRDIHRFEKISNI 37
H + K HRDI K +NI
Sbjct: 115 HEEGKIHRDI----KAANI 129
>gnl|CDD|237373 PRK13387, PRK13387, 1,4-dihydroxy-2-naphthoate
octaprenyltransferase; Provisional.
Length = 317
Score = 25.1 bits (55), Expect = 2.9
Identities = 11/40 (27%), Positives = 18/40 (45%)
Query: 7 LLFERATFLVISHCQRKEHRDIHRFEKISNIIKQFKLSSK 46
L F+ AT + ++ K+ D + I N I Q L +
Sbjct: 49 LAFDIATTAINNYMDFKKALDTADYVGIGNGIGQHGLKPR 88
>gnl|CDD|219666 pfam07961, MBA1, MBA1-like protein. Mba1 is an inner membrane
protein that is part of the mitochondrial protein
export machinery. It binds to the large subunit of
mitochondrial ribosomes and cooperates with the
C-terminal ribosome-binding domain of Oxa1, which is a
central component of the insertion machinery of the
inner membrane. In the absence of both Mba1 and the
C-terminus of Oxa1, mitochondrial translation products
fail to be properly inserted into the inner membrane
and serve as substrates of the matrix chaperone Hsp70.
It is proposed that Mba1 functions as a ribosome
receptor that cooperates with Oxa1 in the positioning
of the ribosome exit site to the insertion machinery of
the inner membrane.
Length = 235
Score = 24.3 bits (53), Expect = 5.2
Identities = 6/30 (20%), Positives = 13/30 (43%)
Query: 26 RDIHRFEKISNIIKQFKLSSKWLPRFIQWK 55
R ++ + + F+ + P F+ WK
Sbjct: 44 RRMYMLGLNTFQVALFRFQTGLKPSFLLWK 73
>gnl|CDD|188702 cd08748, RGS_GRK1, Regulator of G protein signaling domain (RGS)
found in G protein-coupled receptor kinase 1 (GRK1).
The RGS domain is found in G protein-coupled receptor
kinases 1 (GRK1, also refered to as Rhodopsin kinase)
which play a key role in phosphorylation of rhodopsin
(Rho), a G protein-coupled receptor responsible for
visual signal transduction in rod cell. GRK1 is a member
of the GRK kinase family which includes three major
subfamilies: the GRK4 subfamily (GRK4, GRK5 and GRK6),
the rhodopsin kinase or visual GRK subfamily (GRK1 and
GRK7), and the beta-adrenergic receptor kinases
subfamily (GRK2/GRK3). The RGS domain of the GRKs has
very little sequence similarity with the canonical RGS
domain of the RGS proteins and therefore is often
refered to as the RH (RGS Homology) domain. A few
inactivation mutations in GRK1 have been found in
patients with Oguchi disease, a stationary form of night
blindness. RGS proteins regulate many aspects of
embryonic development such as glial differentiation,
embryonic axis formation, skeletal and muscle
development, cell migration during early embryogenesis,
as well as apoptosis, cell proliferation, and modulation
of cardiac development.
Length = 138
Score = 24.0 bits (52), Expect = 6.3
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 40 QFKLSSKWLPRFIQWKY 56
L S + RF+QWK+
Sbjct: 122 APFLDSMYFLRFLQWKW 138
>gnl|CDD|235580 PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase
subunit alpha; Validated.
Length = 319
Score = 23.9 bits (53), Expect = 6.4
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 3 GDEVLLFERATFLVIS 18
GD VL+ E +T+ VIS
Sbjct: 211 GDRVLMLEYSTYSVIS 226
>gnl|CDD|204166 pfam09210, DUF1957, Domain of unknown function (DUF1957). This
domain is found in a set of hypothetical bacterial
proteins. Its exact function has not, as yet, been
defined.
Length = 102
Score = 23.7 bits (52), Expect = 7.4
Identities = 6/24 (25%), Positives = 12/24 (50%)
Query: 25 HRDIHRFEKISNIIKQFKLSSKWL 48
H + RF ++ ++ L +WL
Sbjct: 61 HEHLKRFWRLYEALEAGSLDEEWL 84
>gnl|CDD|232990 TIGR00472, pheT_bact, phenylalanyl-tRNA synthetase, beta subunit,
non-spirochete bacterial. Every known example of the
phenylalanyl-tRNA synthetase, except the monomeric form
of mitochondrial, is an alpha 2 beta 2 heterotetramer.
The beta subunits break into two subfamilies that are
considerably different in sequence, length, and pattern
of gaps. This model represents the subfamily that
includes the beta subunit from Bacteria other than
spirochetes, as well as a chloroplast-encoded form from
Porphyra purpurea. The chloroplast-derived sequence is
considerably shorter at the amino end, however, so This
model was built in fragment mode [Protein synthesis,
tRNA aminoacylation].
Length = 797
Score = 23.8 bits (52), Expect = 8.1
Identities = 9/52 (17%), Positives = 19/52 (36%), Gaps = 6/52 (11%)
Query: 8 LFERATFLVISHCQRKEHRDIHRFEKISNIIKQFKLSSKWLPRFIQWKYATL 59
+FE I K+ + +++ +I K S W + + + L
Sbjct: 572 IFE------IGKVFAKDGEAVKEQLRLAILISGEKNPSSWNHKEEKVDFYDL 617
>gnl|CDD|238402 cd00779, ProRS_core_prok, Prolyl-tRNA synthetase (ProRS) class II
core catalytic domain. ProRS is a homodimer. It is
responsible for the attachment of proline to the 3' OH
group of ribose of the appropriate tRNA. This domain is
primarily responsible for ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. Class II assignment is
based upon its structure and the presence of three
characteristic sequence motifs in the core domain. This
subfamily contains the core domain of ProRS from
prokaryotes and from the mitochondria of eukaryotes.
Length = 255
Score = 23.7 bits (52), Expect = 9.1
Identities = 9/28 (32%), Positives = 14/28 (50%), Gaps = 3/28 (10%)
Query: 32 EKISNIIKQFKLSSKWLPRF---IQWKY 56
E I++++ S K LP IQ K+
Sbjct: 96 EVITDLVANEIKSYKQLPLNLYQIQTKF 123
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
0.328 0.138 0.429
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,230,035
Number of extensions: 223193
Number of successful extensions: 317
Number of sequences better than 10.0: 1
Number of HSP's gapped: 315
Number of HSP's successfully gapped: 18
Length of query: 64
Length of database: 10,937,602
Length adjustment: 35
Effective length of query: 29
Effective length of database: 9,385,212
Effective search space: 272171148
Effective search space used: 272171148
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 53 (24.2 bits)