RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11715
(118 letters)
>gnl|CDD|119434 cd05174, PI3Kc_IA_delta, Phosphoinositide 3-kinase (PI3K), class
IA, delta isoform, catalytic domain; The PI3K catalytic
domain family is part of a larger superfamily that
includes the catalytic domains of other kinases such as
the typical serine/threonine/tyrosine protein kinases
(PKs), aminoglycoside phosphotransferase, choline
kinase, and RIO kinases. PI3Ks catalyze the transfer of
the gamma-phosphoryl group from ATP to the 3-hydroxyl of
the inositol ring of D-myo-phosphatidylinositol (PtdIns)
or its derivatives. PI3Ks can be divided into three main
classes (I, II, and III), defined by their substrate
specificity, regulation, and domain structure. Class I
PI3Ks are the only enzymes capable of converting
PtdIns(4,5)P2 to the critical second messenger
PtdIns(3,4,5)P3. Class I enzymes are heterodimers and
exist in multiple isoforms consisting of one catalytic
subunit (out of four isoforms) and one of several
regulatory subunits. They are further classified into
class IA (alpha, beta and delta) and IB (gamma). Class
IA enzymes contain an N-terminal p85 binding domain, a
Ras binding domain, a lipid binding C2 domain, a PI3K
homology domain of unknown function, and a C-terminal
ATP-binding cataytic domain. They associate with a
regulatory subunit of the p85 family and are activated
by tyrosine kinase receptors. PI3Kdelta is mainly
expressed in immune cells and plays an important role in
cellular and humoral immunity. It plays a major role in
antigen receptor signaling in B-cells, T-cells, and mast
cells. It regulates the differentiation of peripheral
helper T-cells and controls the development and function
of regulatory T-cells.
Length = 361
Score = 27.7 bits (61), Expect = 1.4
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 35 AELFHNFCGYHSITKCLLCNQCPFFNNLFTLARITGCKEVMRKSAYMKMLKSS 87
+E F F GY +L F +LF L + G E + S ++ LK S
Sbjct: 271 SEKFERFRGYCEQAYKILRRHGTLFLHLFALMKAAGLPE-LNCSKDIQYLKDS 322
>gnl|CDD|234528 TIGR04264, hyperosmo_Ebh, hyperosmolarity resistance protein Ebh,
N-terminal domain. Staphylococcal protein Ebh
(extracellular matrix-binding protein homolog) is a
giant protein, sometimes over 10,000 amino acids long as
reported. This model describes a non-repetitive
amino-terminal domain of about 2400 amino acids.
Length = 2354
Score = 27.1 bits (60), Expect = 2.6
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 96 GKPGQKPAALVGAIPADPS 114
GK GQKP V +P D +
Sbjct: 632 GKGGQKPTITVTNVPQDTN 650
>gnl|CDD|235099 PRK03011, PRK03011, butyrate kinase; Provisional.
Length = 358
Score = 26.7 bits (60), Expect = 2.9
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 65 LARITGCKEVMRKS 78
+ARI+G E+ RKS
Sbjct: 138 VARISGLPEIERKS 151
>gnl|CDD|169983 PRK09579, PRK09579, multidrug efflux protein; Reviewed.
Length = 1017
Score = 26.7 bits (59), Expect = 3.1
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 14 LYSRSPQPHNKSYLKFFVVGKAELFHNFCGYHS 46
+ S SPQP N YL + +F +F Y+S
Sbjct: 560 MMSSSPQPANLDYLNAYTDEFTPIFKSFPEYYS 592
>gnl|CDD|239614 cd03541, Rieske_RO_Alpha_CMO, Rieske non-heme iron oxygenase (RO)
family, Choline monooxygenase (CMO) subfamily,
N-terminal Rieske domain of the oxygenase alpha
subunit; ROs comprise a large class of aromatic
ring-hydroxylating dioxygenases that enable
microorganisms to tolerate and utilize aromatic
compounds for growth. The oxygenase alpha subunit
contains an N-terminal Rieske domain with an [2Fe-2S]
cluster and a C-terminal catalytic domain with a
mononuclear Fe(II) binding site. The Rieske [2Fe-2S]
cluster accepts electrons from a reductase or
ferredoxin component and transfers them to the
mononuclear iron for catalysis. CMO is a novel RO found
in certain plants which catalyzes the first step in
betaine synthesis. CMO is not found in animals or
bacteria. In these organisms, the first step in betaine
synthesis is catalyzed by either the membrane-bound
choline dehydrogenase (CDH) or the soluble choline
oxidase (COX).
Length = 118
Score = 25.6 bits (56), Expect = 4.4
Identities = 18/65 (27%), Positives = 25/65 (38%), Gaps = 12/65 (18%)
Query: 33 GKAELFHNFCGYH-SITKC----LLCNQCPFFNNLFTL-------ARITGCKEVMRKSAY 80
GK FHN C + SI C C CP+ ++ L + TG + K
Sbjct: 35 GKLHAFHNVCTHRASILACGSGKKSCFVCPYHGWVYGLDGSLTKATQATGIQNFNPKELG 94
Query: 81 MKMLK 85
+ LK
Sbjct: 95 LVPLK 99
>gnl|CDD|99864 cd06111, DsCS_like, Cold-active citrate synthase (CS) from an
Antarctic bacterial strain DS2-3R (Ds)-like. CS
catalyzes the condensation of acetyl coenzyme A (AcCoA)
and oxalacetate (OAA) to form citrate and coenzyme A
(CoA), the first step in the citric acid cycle (TCA or
Krebs cycle). 2-methylcitrate synthase (2MCS) catalyzes
the condensation of propionyl-coenzyme A (PrCoA) and OAA
to form 2-methylcitrate and coenzyme A (CoA) during
propionate metabolism. The overall CS reaction is
thought to proceed through three partial reactions: a)
the carbanion or equivalent is generated from AcCoA by
base abstraction of a proton, b) the nucleophilic attack
of this carbanion on OAA to generate citryl-CoA, and c)
the hydrolysis of citryl-CoA to produce citrate and CoA.
DsCS, compared with CS from the hyperthermophile
Pyrococcus furiosus (not included in this group), has an
increase in the size of surface loops, a higher proline
content in the loop regions, a more accessible active
site, and a higher number of intramolecular ion pairs.
This group contains proteins which functions exclusively
as either a CS or a 2MCS, as well as those with relaxed
specificity which have dual functions as both a CS and a
2MCS. For example, included in this group are
Corynebacterium glutamicum (Cg) PrpC1 and -2, which are
only synthesized during growth on propionate-containing
medium, can use PrCoA, AcCoA and butyryl-CoA as
substrates, and have comparable catalytic activity with
AcCoA as the major CgCS (GltA, not included in this
group).
Length = 362
Score = 25.8 bits (57), Expect = 6.0
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 57 PFFNNLFTLARITG 70
FF +F +ARITG
Sbjct: 320 DFFTPIFVMARITG 333
>gnl|CDD|237535 PRK13868, PRK13868, type IV secretion system single-stranded DNA
binding protein VirE2; Provisional.
Length = 556
Score = 25.7 bits (56), Expect = 7.0
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 6 YQNETEKSLYSRSPQPHNKSYLKFFVVGKAEL-FHNFCG 43
Y ++TE L S+S H+ YL+ + G A++ F F G
Sbjct: 299 YGSDTEIKLKSKSGIMHDSKYLESWERGSADIRFAEFAG 337
>gnl|CDD|237590 PRK14033, PRK14033, citrate synthase; Provisional.
Length = 375
Score = 25.3 bits (56), Expect = 9.3
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 57 PFFNNLFTLARITG 70
FF +F ++RITG
Sbjct: 330 DFFTPIFVMSRITG 343
>gnl|CDD|215631 PLN03202, PLN03202, protein argonaute; Provisional.
Length = 900
Score = 25.4 bits (56), Expect = 9.9
Identities = 11/22 (50%), Positives = 14/22 (63%), Gaps = 2/22 (9%)
Query: 11 EKSLYSRSPQPHNKSYLKFFVV 32
EKSL++ P NK L+F VV
Sbjct: 110 EKSLFTVGALPQNK--LEFTVV 129
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
0.323 0.136 0.438
Gapped
Lambda K H
0.267 0.0680 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,736,549
Number of extensions: 450392
Number of successful extensions: 479
Number of sequences better than 10.0: 1
Number of HSP's gapped: 479
Number of HSP's successfully gapped: 12
Length of query: 118
Length of database: 10,937,602
Length adjustment: 81
Effective length of query: 37
Effective length of database: 7,344,928
Effective search space: 271762336
Effective search space used: 271762336
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (24.3 bits)