RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17257
(778 letters)
>gnl|CDD|237987 cd00020, ARM, Armadillo/beta-catenin-like repeats. An approximately
40 amino acid long tandemly repeated sequence motif
first identified in the Drosophila segment polarity gene
armadillo; these repeats were also found in the
mammalian armadillo homolog beta-catenin, the junctional
plaque protein plakoglobin, the adenomatous polyposis
coli (APC) tumor suppressor protein, and a number of
other proteins. ARM has been implicated in mediating
protein-protein interactions, but no common features
among the target proteins recognized by the ARM repeats
have been identified; related to the HEAT domain; three
consecutive copies of the repeat are represented by this
alignment model.
Length = 120
Score = 52.3 bits (126), Expect = 3e-08
Identities = 27/128 (21%), Positives = 56/128 (43%), Gaps = 10/128 (7%)
Query: 556 LLGRLGVIKKMLRLIKDRIEKQRCDDILEVAWSAMWNVTDETAINCARFLNNGGMELFLN 615
+ + G + ++ L+ + E AW A+ N++ N + GG+ +
Sbjct: 2 AVIQAGGLPALVSLLS----SSDENVQREAAW-ALSNLSAGNNDNIQAVVEAGGLPALVQ 56
Query: 616 CLQYFPEKDELLRNMMGLLGNVAEVKSLRPKLMTSK-FIEVFANLVSSKSDGIEVSYNAA 674
L+ E +E+++ + L N+A ++ + NL+ S ++ I+ NA
Sbjct: 57 LLK--SEDEEVVKAALWALRNLAAGPEDNKLIVLEAGGVPKLVNLLDSSNEDIQ--KNAT 112
Query: 675 GVLSHIAS 682
G LS++AS
Sbjct: 113 GALSNLAS 120
Score = 38.4 bits (90), Expect = 0.002
Identities = 26/133 (19%), Positives = 52/133 (39%), Gaps = 29/133 (21%)
Query: 646 KLMTSKFIEVFANLVSSKSDGIEVSYNAAGVLSHIASDGPEAWTIRYPAREKVLAKMVEA 705
++ + + +L+SS + ++ AA LS++++ + + V
Sbjct: 2 AVIQAGGLPALVSLLSSSDENVQR--EAAWALSNLSAGNND------------NIQAV-- 45
Query: 706 IERWPIDSERNINYRSFEPIIQLLRVYHTPECQHWSVWALANLTKVYPEKYCQVVEAEGG 765
+ ++QLL+ E ++WAL NL + +V GG
Sbjct: 46 -----------VEAGGLPALVQLLKS-EDEEVVKAALWALRNLAAGPEDNK-LIVLEAGG 92
Query: 766 IELLQNLLDNENK 778
+ L NLLD+ N+
Sbjct: 93 VPKLVNLLDSSNE 105
>gnl|CDD|227396 COG5064, SRP1, Karyopherin (importin) alpha [Intracellular
trafficking and secretion].
Length = 526
Score = 35.3 bits (81), Expect = 0.13
Identities = 30/107 (28%), Positives = 48/107 (44%), Gaps = 4/107 (3%)
Query: 580 DDILEVAWSAMWNVTDETAINCARFLNNGGMELFLNCLQYFPEKDELLRNMMGLLGNVAE 639
DD+ E A A+ N+ ++ L G +E L L +LRN L N+
Sbjct: 171 DDVREQAVWALGNIAGDSEGCRDYVLQCGALEPLLGLLLSSAIHISMLRNATWTLSNLCR 230
Query: 640 VKSLRPKLMT-SKFIEVFANLVSSKSDGIEVSYNAAGVLSHIASDGP 685
K+ P S+ + + A L+ S+ EV +A +S++ SDGP
Sbjct: 231 GKNPPPDWSNISQALPILAKLIYSRD--PEVLVDACWAISYL-SDGP 274
>gnl|CDD|176526 cd08584, PI-PLCc_GDPD_SF_unchar2, Uncharacterized hypothetical
proteins similar to the catalytic domains of
Phosphoinositide-specific phospholipaseand
Glycerophosphodiester phosphodiesterases. This
subfamily corresponds to a group of uncharacterized
hypothetical proteins similar to the catalytic domains
of Phosphoinositide-specific phospholipase C (PI-PLC),
and glycerophosphodiester phosphodiesterases (GP-GDE),
and also sphingomyelinases D (SMases D) and similar
proteins. They hydrolyze the 3'-5' phosphodiester bonds
in different substrates, utilizing a similar mechanism
of general base and acid catalysis involving two
conserved histidine residues.
Length = 192
Score = 33.8 bits (78), Expect = 0.20
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 56 EISEKFLSMYEKSGGIVIDSFVDTFLTKDITH 87
E LS+YEK+ + IDSF +L D+
Sbjct: 112 EPIPTALSLYEKADWVWIDSFTSLWLDNDLIL 143
>gnl|CDD|131721 TIGR02673, FtsE, cell division ATP-binding protein FtsE. This
model describes FtsE, a member of the ABC transporter
ATP-binding protein family. This protein, and its
permease partner FtsX, localize to the division site. In
a number of species, the ftsEX gene pair is located next
to FtsY, the signal recognition particle-docking protein
[Cellular processes, Cell division].
Length = 214
Score = 31.8 bits (73), Expect = 0.97
Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 9/53 (16%)
Query: 351 SRVDRPLEFLGLYGTKHGASHRHDIPALRVAGDCNEAQLLIAAKAYIDRPEML 403
RV L +GL H+ D +++G E Q + A+A ++ P +L
Sbjct: 116 RRVGAALRQVGL-------EHKADAFPEQLSG--GEQQRVAIARAIVNSPPLL 159
>gnl|CDD|241309 cd10573, PH_DAPP1, Dual Adaptor for Phosphotyrosine and
3-Phosphoinositides Pleckstrin homology (PH) domain.
DAPP1 (also known as PHISH/3'
phosphoinositide-interacting SH2 domain-containing
protein or Bam32) plays a role in B-cell activation and
has potential roles in T-cell and mast cell function.
DAPP1 promotes B cell receptor (BCR) induced activation
of Rho GTPases Rac1 and Cdc42, which feed into
mitogen-activated protein kinases (MAPK) activation
pathways and affect cytoskeletal rearrangement. DAPP1can
also regulate BCR-induced activation of extracellular
signal-regulated kinase (ERK), and c-jun NH2-terminal
kinase (JNK). DAPP1 contains an N-terminal SH2 domain
and a C-terminal pleckstrin homology (PH) domain with a
single tyrosine phosphorylation site located centrally.
DAPP1 binds strongly to both PtdIns(3,4,5)P3 and
PtdIns(3,4)P2. The PH domain is essential for plasma
membrane recruitment of PI3K upon cell activation. PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 96
Score = 30.0 bits (68), Expect = 1.0
Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 16/79 (20%)
Query: 181 ATSSGSLTYKQRGYILKAPKLRRFSLIGHTLMSQSICTQLYR---DMPHLTHLNLSKC-M 236
A+ G LT ++G I+K K R F L + L + ++ D + L+L++C
Sbjct: 3 ASKEGYLT--KQGGIVKNWKTRWFVLRKNEL-------KYFKTRTDTKPIRTLDLTECSS 53
Query: 237 FLFDN---KDLSFLAEFKD 252
D K F F D
Sbjct: 54 VQADYSQGKPNCFRLVFPD 72
>gnl|CDD|130078 TIGR01005, eps_transp_fam, exopolysaccharide transport protein
family. The model describes the exopolysaccharide
transport protein family in bacteria. The transport
protein is part of a large genetic locus which is
associated with exopolysaccharide (EPS) biosynthesis.
Detailed molecular characterization and gene fusion
analysis revealed atleast seven gene products are
involved in the overall regulation, which among other
things, include exopolysaccharide biosynthesis, property
of conferring virulence and exopolysaccharide export
[Transport and binding proteins, Carbohydrates, organic
alcohols, and acids].
Length = 754
Score = 31.1 bits (70), Expect = 2.6
Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 673 AAGVLSHIASDGPEAWTIRYPAREKVLAKMVEAIERWPIDSER--NINYRSFEP 724
+LS + + PA E+VL KM E + + ++ R I +RS +P
Sbjct: 115 VLILLSGLFGLKNDPM--DVPADERVLKKMREKLNVFGVEKTRIIAIEFRSEDP 166
>gnl|CDD|187754 cd09293, AMN1, Antagonist of mitotic exit network protein 1. Amn1
has been functionally characterized in Saccharomyces
cerevisiae as a component of the Antagonist of MEN
pathway (AMEN). The AMEN network is activated by MEN
(mitotic exit network) via an active Cdc14, and in turn
switches off MEN. Amn1 constitutes one of the
alternative mechanisms by which MEN may be disrupted.
Specifically, Amn1 binds Tem1 (Termination of M-phase, a
GTPase that belongs to the RAS superfamily), and
disrupts its association with Cdc15, the primary
downstream target. Amn1 is a leucine-rich repeat (LRR)
protein, with 12 repeats in the S. cerevisiae ortholog.
As a negative regulator of the signal transduction
pathway MEN, overexpression of AMN1 slows the growth of
wild type cells. The function of the vertebrate members
of this family has not been determined experimentally,
they have fewer LRRs that determine the extent of this
model.
Length = 226
Score = 30.4 bits (69), Expect = 3.4
Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 95 NAEVSDSGMQKLLSH--HVQELELIKCANVSQASLEVLNMSSDQLYSLSLGPH 145
+ + D G+ L ++Q L+L C N++ + + L + +L +++LG H
Sbjct: 62 SKLIDDEGLIALAQSCPNLQVLDLRACENITDSGIVALATNCPKLQTINLGRH 114
Score = 30.0 bits (68), Expect = 4.1
Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 81 LTKDITHMKSVKLRNAEVSDSGMQKLL---SHHVQELELIKCANVSQASLEVLNMSS 134
L K+ T +++V +V+D G+ +L S ++ L L C N++ S+ + S+
Sbjct: 128 LGKNCTFLQTVGFAGCDVTDKGVWELASGCSKSLERLSLNNCRNLTDQSIPAILASN 184
>gnl|CDD|198315 cd03206, GST_C_7, C-terminal, alpha helical domain of an unknown
subfamily 7 of Glutathione S-transferases. Glutathione
S-transferase (GST) C-terminal domain family, unknown
subfamily 7; composed of uncharacterized proteins with
similarity to GSTs. GSTs are cytosolic dimeric proteins
involved in cellular detoxification by catalyzing the
conjugation of glutathione (GSH) with a wide range of
endogenous and xenobiotic alkylating agents, including
carcinogens, therapeutic drugs, environmental toxins,
and products of oxidative stress. GSTs also show GSH
peroxidase activity and are involved in the synthesis of
prostaglandins and leukotrienes. The GST fold contains
an N-terminal thioredoxin-fold domain and a C-terminal
alpha helical domain, with an active site located in a
cleft between the two domains. GSH binds to the
N-terminal domain while the hydrophobic substrate
occupies a pocket in the C-terminal domain.
Length = 100
Score = 28.7 bits (65), Expect = 3.6
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 5/34 (14%)
Query: 410 LYHIFRYDTCVDIEHALVV---VLEALDTHLTER 440
L H+F +D E A + +L LD HL R
Sbjct: 21 LIHLFGAP--LDPERARAISHRLLRLLDQHLAGR 52
>gnl|CDD|203377 pfam06018, CodY, CodY GAF-like domain. This domain is a GAF-like
domain found at the N-terminus of several bacterial
GTP-sensing transcriptional pleiotropic repressor CodY
proteins. Presumably this domain is involved in GTP
binding. CodY has been found to repress the dipeptide
transport operon (dpp) of Bacillus subtilis in
nutrient-rich conditions. The CodY protein also has a
repressor effect on many genes in Lactococcus lactis
during growth in milk.
Length = 177
Score = 29.2 bits (66), Expect = 5.0
Identities = 16/39 (41%), Positives = 21/39 (53%)
Query: 37 NKFRCEDVKFRCEDVKFPREISEKFLSMYEKSGGIVIDS 75
K + VK ED KFP E + L++YE S + IDS
Sbjct: 54 YKTENDRVKQFFEDKKFPEEYTSSLLNVYETSANLPIDS 92
>gnl|CDD|218186 pfam04636, PA26, PA26 p53-induced protein (sestrin). PA26 is a
p53-inducible protein. Its function is unknown. It has
similarity to pfam04636 in its N-terminus.
Length = 450
Score = 30.1 bits (68), Expect = 5.1
Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 12/81 (14%)
Query: 604 FLNNGGMELFLNCLQYFPEKDELLRNMMGLLGNVAEVKSLRPKLMTSKFIEVFANLVSSK 663
FL GG +LN L + P K LR L + ++ + RP L+T + IEV LV +
Sbjct: 97 FLQVGGDPRWLNGLDHAPPK---LRK----LLELNKLLAHRPWLITKEHIEV---LVKTG 146
Query: 664 SDGIEVS--YNAAGVLSHIAS 682
++ +A +L+H +
Sbjct: 147 EASWSLAELVHAVVLLAHFHA 167
>gnl|CDD|173877 cd08512, PBP2_NikA_DppA_OppA_like_7, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant
sequence similarity to NikA, the initial nickel
receptor. The DppA binds dipeptides and some
tripeptides and is involved in chemotaxis toward
dipeptides, whereas the OppA binds peptides of a wide
range of lengths (2-35 amino acid residues) and plays a
role in recycling of cell wall peptides, which
precludes any involvement in chemotaxis. Most of other
periplasmic binding proteins are comprised of only two
globular subdomains corresponding to domains I and III
of the dipeptide/oligopeptide binding proteins. The
structural topology of these domains is most similar to
that of the type 2 periplasmic binding proteins (PBP2),
which are responsible for the uptake of a variety of
substrates such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2
bind their ligand in the cleft between these domains in
a manner resembling a Venus flytrap. After binding
their specific ligand with high affinity, they can
interact with a cognate membrane transport complex
comprised of two integral membrane domains and two
cytoplasmically located ATPase domains. This
interaction triggers the ligand translocation across
the cytoplasmic membrane energized by ATP hydrolysis.
Besides transport proteins, the PBP2 superfamily
includes the ligand-binding domains from ionotropic
glutamate receptors, LysR-type transcriptional
regulators, and unorthodox sensor proteins involved in
signal transduction.
Length = 476
Score = 29.5 bits (67), Expect = 6.9
Identities = 11/24 (45%), Positives = 13/24 (54%), Gaps = 6/24 (25%)
Query: 29 FTF------KFHDVNKFRCEDVKF 46
+TF KFHD N EDVK+
Sbjct: 65 YTFHLRDGVKFHDGNPVTAEDVKY 88
>gnl|CDD|237257 PRK12902, secA, preprotein translocase subunit SecA; Reviewed.
Length = 939
Score = 29.6 bits (67), Expect = 8.4
Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 5/59 (8%)
Query: 386 EAQLLIAA-KAYIDRPEMLQQVLNDLYHIFR--YDTCVDIEHALVVVLEALDTHLTERH 441
E ++ AA KA D P + + L + Y+ + Y+ EH VV L TERH
Sbjct: 603 EDKIATAAEKAPTDDPVIQK--LREAYNRIKKEYEVVTSQEHDEVVEAGGLHVIGTERH 659
>gnl|CDD|215249 PLN02454, PLN02454, triacylglycerol lipase.
Length = 414
Score = 29.0 bits (65), Expect = 9.9
Identities = 20/77 (25%), Positives = 34/77 (44%), Gaps = 1/77 (1%)
Query: 638 AEVKSLRPKLMTSKFI-EVFANLVSSKSDGIEVSYNAAGVLSHIASDGPEAWTIRYPARE 696
A++ S P L + V + S D + G L+ SD P + + AR
Sbjct: 151 AKLTSADPLLPGPEQDGVVSGSSSDSDDDDEKGPKVMLGWLTIYTSDDPRSPFTKLSARS 210
Query: 697 KVLAKMVEAIERWPIDS 713
++LAK+ E +ER+ +
Sbjct: 211 QLLAKIKELLERYKDEK 227
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
0.322 0.137 0.408
Gapped
Lambda K H
0.267 0.0656 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 39,392,177
Number of extensions: 3900062
Number of successful extensions: 3009
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3002
Number of HSP's successfully gapped: 28
Length of query: 778
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 674
Effective length of database: 6,324,786
Effective search space: 4262905764
Effective search space used: 4262905764
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: 63 (28.2 bits)