RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3287
(122 letters)
>gnl|CDD|216201 pfam00930, DPPIV_N, Dipeptidyl peptidase IV (DPP IV) N-terminal
region. This family is an alignment of the region to
the N-terminal side of the active site. The Prosite
motif does not correspond to this Pfam entry.
Length = 348
Score = 48.5 bits (116), Expect = 9e-08
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 8/59 (13%)
Query: 66 LTDDP---LAAGIPSYVTQEE-FSRYQGYWWQPKTTDGVYRILYEEIDESDVKIYNFPS 120
+T D + G+ +V +EE F YWW P + R+ + DES+V I P
Sbjct: 78 ITSDGSNGIFNGLADWVYEEEVFGSNSAYWWSPDGS----RLAFLRFDESEVPIITLPD 132
Score = 32.7 bits (75), Expect = 0.030
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 4/34 (11%)
Query: 19 LTDDP---LAAGIPSYVTQEE-FSRYQGYWWQPK 48
+T D + G+ +V +EE F YWW P
Sbjct: 78 ITSDGSNGIFNGLADWVYEEEVFGSNSAYWWSPD 111
>gnl|CDD|241300 cd01270, PTB_CAPON-like, Carboxyl-terminal PDZ ligand of neuronal
nitric oxide synthase protein (CAPON)
Phosphotyrosine-binding (PTB) domain. CAPON (also known
as Nitric oxide synthase 1 adaptor protein, NOS1AP,
encodes a cytosolic protein that binds to the signaling
molecule, neuronal NOS (nNOS). It contains a N-terminal
PTB domain that binds to the small monomeric G protein,
Dexras1 and a C-terminal PDZ-binding domain that
mediates interactions with nNOS. Included in this cd
are C. elegan proteins dystrobrevin, DYB-1, which
controls neurotransmitter release and muscle Ca(2+)
transients by localizing BK channels and DYstrophin-like
phenotype and CAPON related,DYC-1, which is functionally
related to dystrophin homolog, DYS-1. Mutations in the
dystrophin gene causes Duchenne muscular dystrophy.
DYS-1 shares sequence similarity, including key motifs,
with their mammalian counterparts. These CAPON-like
proteins all have a single PTB domain. PTB domains have
a common PH-like fold and are found in various
eukaryotic signaling molecules. This domain was
initially shown to binds peptides with a NPXY motif with
differing requirements for phosphorylation of the
tyrosine, although more recent studies have found that
some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 179
Score = 29.2 bits (66), Expect = 0.45
Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 86 RYQGYWWQPKTT----DGVYRILYEEIDESDVKIYNF 118
+ +G+ W +YRI Y D D+KI+++
Sbjct: 89 KKKGWTWDESKLLLMQHPIYRIFYVSHDSQDLKIFSY 125
>gnl|CDD|173441 PTZ00152, PTZ00152, cofilin/actin-depolymerizing factor 1-like
protein; Provisional.
Length = 122
Score = 26.5 bits (58), Expect = 3.0
Identities = 11/54 (20%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 13 HKGGRNLTDDPLAAGIP-------SYVTQEEFSRYQGYWWQPKTTGSTQRLTFA 59
H G T L I +YV + ++ + + +++ S R+T+A
Sbjct: 39 HSKGATTTLTELVGSIDKNDKIQCAYVVFDAVNKIHFFMYARESSNSRDRMTYA 92
>gnl|CDD|218422 pfam05088, Bac_GDH, Bacterial NAD-glutamate dehydrogenase. This
family consists of several bacterial proteins which are
closely related to NAD-glutamate dehydrogenase found in
Streptomyces clavuligerus. Glutamate dehydrogenases
(GDHs) are a broadly distributed group of enzymes that
catalyze the reversible oxidative deamination of
glutamate to ketoglutarate and ammonia.
Length = 1526
Score = 26.7 bits (60), Expect = 4.2
Identities = 11/21 (52%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 3 LGSTQ--RLTFAHKGGRNLTD 21
LG TQ R+ +A GGR TD
Sbjct: 1061 LGVTQLGRIEYALNGGRINTD 1081
>gnl|CDD|197240 cd09142, PLDc_pPLD_like_2, Catalytic domain, repeat 2, of plant
phospholipase D and similar proteins. Catalytic domain,
repeat 2, of plant phospholipase D (PLD, EC 3.1.4.4) and
similar proteins. Plant PLDs have broad substrate
specificity and can hydrolyze the terminal
phosphodiester bond of several common membrane
phospholipids such as phosphatidylcholine (PC),
phosphatidylethanolamine (PE), phosphatidylglycerol
(PG), and phosphatidylserine (PS), with the formation of
phosphatidic acid and alcohols. Phosphatidic acid is an
essential compound involved in signal transduction. PLDs
also catalyze the transphosphatidylation of
phospholipids to acceptor alcohols, by which various
phospholipids can be synthesized. Most plant PLDs
possess a regulatory calcium-dependent
phospholipid-binding C2 domain in the N-terminus and
require calcium for activity, which is unique to plant
PLDs and is not present in animal or fungal PLDs. Like
other PLD enzymes, the monomer of plant PLDs consists of
two catalytic domains, each of which contains one copy
of the conserved HKD motif (H-x-K-x(4)-D, where x
represents any amino acid residue). Two HKD motifs from
two domains form a single active site. Plant PLDs may
utilize a common two-step ping-pong catalytic mechanism
involving an enzyme-substrate intermediate to cleave
phosphodiester bonds. The two histidine residues from
the two HKD motifs play key roles in the catalysis. Upon
substrate binding, a histidine residue from one HKD
motif could function as the nucleophile, attacking the
phosphodiester bond to create a covalent
phosphohistidine intermediate, while the other histidine
residue from the second HKD motif could serve as a
general acid, stabilizing the leaving group. This
subfamily includes two types of plant PLDs, alpha-type
and beta-type PLDs, which are derived from different
gene products and distinctly regulated. The zeta-type
PLD from Arabidopsis is not included in this subfamily.
Length = 208
Score = 26.2 bits (58), Expect = 4.4
Identities = 10/43 (23%), Positives = 19/43 (44%), Gaps = 5/43 (11%)
Query: 74 GIPSYVTQEEFSRYQGYWWQPKTTDGVYRILYEEIDESDVKIY 116
GIP + +E WQ T + +Y+I+ + I + +
Sbjct: 81 GIPESESVQEILY-----WQRLTIEMMYKIIGKAIQATGLFSE 118
>gnl|CDD|130253 TIGR01185, devC, DevC protein. This model describes a predicted
membrane subunit, DevC, of an ABC transporter known so
far from two species of cyanobacteria. Some experimental
data from mutational analysis suggest that this protein
along with DevA and DevB encoded in the same operon may
be involved in the transport/export of glycolipids
[Transport and binding proteins, Other].
Length = 380
Score = 26.4 bits (58), Expect = 5.1
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 17/48 (35%)
Query: 80 TQEEFSRYQGYWWQPKTTDG-----------------VYRILYEEIDE 110
T++EF ++ +W T G VY+ILY E+ +
Sbjct: 239 TKQEFIDFERNYWASSTAIGFIFTLGTIMGFIVGTVIVYQILYTEVAD 286
>gnl|CDD|185125 PRK15203, PRK15203, 4-hydroxyphenylacetate degradation bifunctional
isomerase/decarboxylase; Provisional.
Length = 429
Score = 25.8 bits (56), Expect = 6.7
Identities = 8/33 (24%), Positives = 14/33 (42%), Gaps = 4/33 (12%)
Query: 24 LAAGIPSY----VTQEEFSRYQGYWWQPKTTGS 52
LA G P V + E + ++ + P G+
Sbjct: 192 LAEGFPPLENPVVDEREVTTHKSFPTPPHPHGT 224
>gnl|CDD|234629 PRK00094, gpsA, NAD(P)H-dependent glycerol-3-phosphate
dehydrogenase; Validated.
Length = 325
Score = 25.8 bits (58), Expect = 7.1
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 97 TDGVYRILYEEID 109
T+ VY +LYE D
Sbjct: 302 TEAVYAVLYEGKD 314
>gnl|CDD|238676 cd01380, MYSc_type_V, Myosin motor domain, type V myosins. Myosins
V transport a variety of intracellular cargo
processively along actin filaments, such as membraneous
organelles and mRNA. This catalytic (head) domain has
ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 691
Score = 25.7 bits (57), Expect = 7.8
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 15/45 (33%)
Query: 72 AAGIPSYVTQEEFSRYQGYWWQPKTTDGVYRILY--EEIDESDVK 114
AAG PS T EEF++ YR+L +E+ +SD K
Sbjct: 622 AAGFPSRWTYEEFAQR-------------YRVLVPSKELWKSDPK 653
>gnl|CDD|223977 COG1048, AcnA, Aconitase A [Energy production and conversion].
Length = 861
Score = 25.8 bits (57), Expect = 7.9
Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 82 EEFSRYQGYWWQPKTTDGVY-RILYEEIDESDVK 114
E +++ QG W+ P D Y ++L E+D S V+
Sbjct: 329 EAYAKAQGLWYDPADKDAEYDKVL--ELDLSTVE 360
>gnl|CDD|223318 COG0240, GpsA, Glycerol-3-phosphate dehydrogenase [Energy
production and conversion].
Length = 329
Score = 25.6 bits (57), Expect = 8.1
Identities = 8/13 (61%), Positives = 11/13 (84%)
Query: 97 TDGVYRILYEEID 109
T+ VYR+LYE +D
Sbjct: 301 TEAVYRVLYEGLD 313
>gnl|CDD|200235 TIGR03033, phage_rel_nuc, putative phage-type endonuclease.
Members of this protein family are found often in phage
genomes and in prokaryotic genomes in uncharacterized
regions that resemble integrated prophage regions.
Length = 153
Score = 25.1 bits (55), Expect = 9.6
Identities = 16/61 (26%), Positives = 22/61 (36%), Gaps = 8/61 (13%)
Query: 14 KGGRNLTDDPLAAGIPSYVTQEEFSRYQGYWWQPKTT-GSTQRLTFAHKGGRNLTDDPLA 72
KGG +D G+ Y T EE W+ KT + + A G L +
Sbjct: 14 KGGITASDIAAIMGLNPYKTPEEL-------WKEKTGFVEPEDMNEAMYHGVKLEPEARE 66
Query: 73 A 73
A
Sbjct: 67 A 67
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
0.316 0.135 0.425
Gapped
Lambda K H
0.267 0.0826 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,438,378
Number of extensions: 547642
Number of successful extensions: 493
Number of sequences better than 10.0: 1
Number of HSP's gapped: 491
Number of HSP's successfully gapped: 22
Length of query: 122
Length of database: 10,937,602
Length adjustment: 84
Effective length of query: 38
Effective length of database: 7,211,866
Effective search space: 274050908
Effective search space used: 274050908
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.0 bits)