RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3386
(76 letters)
>gnl|CDD|214483 smart00042, CUB, Domain first found in C1r, C1s, uEGF, and bone
morphogenetic protein. This domain is found mostly
among developmentally-regulated proteins. Spermadhesins
contain only this domain.
Length = 102
Score = 48.2 bits (115), Expect = 4e-09
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 11 GTFTSPNFPGLYPRDTECHYFFYGRNDERIKLVFESFD 48
GT TSPN+P YP + +C + RI+L F FD
Sbjct: 1 GTITSPNYPQSYPNNLDCVWTIRAPPGYRIELQFTDFD 38
>gnl|CDD|238001 cd00041, CUB, CUB domain; extracellular domain; present in
proteins mostly known to be involved in development;
not found in prokaryotes, plants and yeast.
Length = 113
Score = 48.2 bits (115), Expect = 6e-09
Identities = 16/42 (38%), Positives = 22/42 (52%)
Query: 7 GHRNGTFTSPNFPGLYPRDTECHYFFYGRNDERIKLVFESFD 48
+GT +SPN+P YP + C + RI+L FE FD
Sbjct: 7 ASTSGTISSPNYPNNYPNNLNCVWTIEAPPGYRIRLTFEDFD 48
>gnl|CDD|215916 pfam00431, CUB, CUB domain.
Length = 110
Score = 43.1 bits (102), Expect = 5e-07
Identities = 15/39 (38%), Positives = 22/39 (56%)
Query: 10 NGTFTSPNFPGLYPRDTECHYFFYGRNDERIKLVFESFD 48
+G+ TSPN+P YP + +C + RI L F+ FD
Sbjct: 9 SGSITSPNYPNSYPPNKDCVWTIRAPPGYRISLTFQDFD 47
>gnl|CDD|152466 pfam12031, DUF3518, Domain of unknown function (DUF3518). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is about 260
amino acids in length. This domain is found associated
with pfam01388.
Length = 257
Score = 29.0 bits (65), Expect = 0.17
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 5/29 (17%)
Query: 33 YGRNDERIKLVFESFDDWWWIWLRQHCLG 61
Y R +E + S D+WWW CL
Sbjct: 57 YQREEEEDDGLSCSKDEWWW-----DCLE 80
>gnl|CDD|224193 COG1274, PckA, Phosphoenolpyruvate carboxykinase (GTP) [Energy
production and conversion].
Length = 608
Score = 26.2 bits (58), Expect = 1.9
Identities = 17/49 (34%), Positives = 19/49 (38%), Gaps = 8/49 (16%)
Query: 8 HRNGTFTSP--NFPGLYPR-DTEC-----HYFFYGRNDERIKLVFESFD 48
H N FT P P L P D F GR + LV E+FD
Sbjct: 387 HPNSRFTVPLSQCPNLDPEWDDPEGVPIDAIIFGGRRPTTVPLVTEAFD 435
>gnl|CDD|129825 TIGR00742, yjbN, tRNA dihydrouridine synthase A. This model
represents one branch of COG0042 (Predicted TIM-barrel
enzymes, possibly dehydrogenases, nifR3 family). It
represents a distinct subset by a set of shared unique
motifs, a conserved pattern of insertions/deletions
relative to other nifR3 homologs, and by subclustering
based on cross-genome bidirectional best hits. Members
are found in species as diverse as the proteobacteria, a
spirochete, a cyanobacterium, and Deinococcus
radiodurans. NifR3 itself, a protein of unknown function
associated with nitrogen regulation in Rhodobacter
capsulatus, is not a member of this branch. Members of
this family show a distant relationship to alpha/beta
(TIM) barrel enzymes such as dihydroorotate
dehydrogenase and glycolate oxidase [Protein synthesis,
tRNA and rRNA base modification].
Length = 318
Score = 25.9 bits (57), Expect = 1.9
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 61 GCKNFIIHSIKCLSSG 76
GC+NFI+H+ K SG
Sbjct: 154 GCQNFIVHARKAWLSG 169
>gnl|CDD|173863 cd08498, PBP2_NikA_DppA_OppA_like_2, 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 = 481
Score = 25.2 bits (56), Expect = 3.3
Identities = 5/11 (45%), Positives = 7/11 (63%)
Query: 41 KLVFESFDDWW 51
+ V E DD+W
Sbjct: 170 RTVLERNDDYW 180
>gnl|CDD|213321 cd05974, MACS_like_1, Uncharacterized subfamily of medium-chain
acyl-CoA synthetase (MACS). MACS catalyzes the two-step
activation of medium chain fatty acids (containing 4-12
carbons). The carboxylate substrate first reacts with
ATP to form an acyl-adenylate intermediate, which then
reacts with CoA to produce an acyl-CoA ester. MACS
enzymes are localized to mitochondria.
Length = 433
Score = 25.4 bits (56), Expect = 3.4
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 24 RDTECHYFFYGRNDERIK 41
RD + + +F GR D+ K
Sbjct: 318 RDEDGYLWFVGRADDVFK 335
>gnl|CDD|220634 pfam10220, DUF2146, Uncharacterized conserved protein (DUF2146).
This is a family of proteins conserved from plants to
humans. In Dictyostelium it is annotated as Mss11p but
this could not be confirmed. Mss11p is required for the
activation of pseudo-hyphal and invasive growth by
Ste12p in yeast.
Length = 890
Score = 25.2 bits (55), Expect = 3.9
Identities = 11/38 (28%), Positives = 15/38 (39%), Gaps = 7/38 (18%)
Query: 18 FPGLYPRDTE-----CHYFFYGRNDERI-KLVFESFDD 49
FP L+P E C Y + ++ L E DD
Sbjct: 39 FP-LFPSTPEGGAPDCTIQAYFSQESQVLYLHLEGVDD 75
>gnl|CDD|220193 pfam09346, SMI1_KNR4, SMI1 / KNR4 family (SUKH-1). Proteins in
this family are involved in the regulation of
1,3-beta-glucan synthase activity and cell-wall
formation. Genome contextual information showed that
SMI1 are primary immunity proteins in bacterial toxin
systems.
Length = 121
Score = 24.4 bits (53), Expect = 5.8
Identities = 5/28 (17%), Positives = 13/28 (46%)
Query: 23 PRDTECHYFFYGRNDERIKLVFESFDDW 50
+F+ D+ ++V SF+++
Sbjct: 91 DGPEGGEVYFWDHEDDEKEVVAPSFEEF 118
>gnl|CDD|217991 pfam04258, Peptidase_A22B, Signal peptide peptidase. The members
of this family are membrane proteins. In some proteins
this region is found associated with pfam02225. This
family corresponds with Merops subfamily A22B, the type
example of which is signal peptide peptidase. There is a
sequence-similarity relationship with pfam01080.
Length = 291
Score = 24.6 bits (54), Expect = 5.9
Identities = 7/28 (25%), Positives = 13/28 (46%), Gaps = 4/28 (14%)
Query: 50 WWWIWLRQHCLGCK----NFIIHSIKCL 73
WW++ ++H + I+ IK L
Sbjct: 109 WWYVLRKEHWILQDILGIALCINVIKIL 136
>gnl|CDD|178126 PLN02510, PLN02510, probable 1-acyl-sn-glycerol-3-phosphate
acyltransferase.
Length = 374
Score = 24.7 bits (54), Expect = 6.0
Identities = 9/24 (37%), Positives = 15/24 (62%), Gaps = 3/24 (12%)
Query: 49 DWWWIW---LRQHCLGCKNFIIHS 69
DW ++W LR+ CLG +++ S
Sbjct: 105 DWMYLWDLALRKGCLGYIKYVLKS 128
>gnl|CDD|213312 cd05959, BCL_4HBCL, Benzoate CoA ligase (BCL) and
4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase).
Benzoate CoA ligase and 4-hydroxybenzoate-coenzyme A
ligase catalyze the first activating step for benzoate
and 4-hydroxybenzoate catabolic pathways, respectively.
Although these two enzymes share very high sequence
homology, they have their own substrate preference. The
reaction proceeds via a two-step process; the first
ATP-dependent step forms the substrate-AMP intermediate,
while the second step forms the acyl-CoA ester,
releasing the AMP. Aromatic compounds represent the
second most abundant class of organic carbon compounds
after carbohydrates. Some bacteria can use benzoic acid
or benzenoid compounds as the sole source of carbon and
energy through degradation. Benzoate CoA ligase and
4-hydroxybenzoate-Coenzyme A ligase are key enzymes of
this process.
Length = 506
Score = 24.6 bits (54), Expect = 6.8
Identities = 8/20 (40%), Positives = 15/20 (75%)
Query: 22 YPRDTECHYFFYGRNDERIK 41
Y RD + +Y++ GR+D+ +K
Sbjct: 392 YYRDEDGYYWYCGRSDDMLK 411
>gnl|CDD|188999 cd06461, M2_ACE, Peptidase family M2 Angiotensin converting enzyme
(ACE). Peptidase family M2 Angiotensin converting
enzyme (ACE, EC 3.4.15.1) is a membrane-bound, zinc
dependent dipeptidase that catalyzes the conversion of
the decapeptide angiotensin I to the potent vasopressor
octapeptide angiotensin II, by removing two C-terminal
amino acids. There are two forms of the enzyme in
humans, the ubiquitous somatic ACE and the
sperm-specific germinal ACE, both encoded by the same
gene through transcription from alternative promoters.
Somatic ACE has two tandem active sites with distinct
catalytic properties, whereas germinal ACE, the function
of which is largely unknown, has just a single active
site. Recently, an ACE homolog, ACE2, has been
identified in humans that differs from ACE; it
preferentially removes carboxy-terminal hydrophobic or
basic amino acids and appears to be important in cardiac
function. ACE homologs (also known as members of the M2
gluzincin family) have been found in a wide variety of
species, including those that neither have a
cardiovascular system nor synthesize angiotensin. ACE is
well-known as a key part of the renin-angiotensin system
that regulates blood pressure and ACE inhibitors are
important for the treatment of hypertension.
Length = 562
Score = 24.4 bits (54), Expect = 7.9
Identities = 11/21 (52%), Positives = 12/21 (57%), Gaps = 3/21 (14%)
Query: 24 RDTECH---YFFYGRNDERIK 41
RD CH + FY R D RIK
Sbjct: 303 RDVVCHASAWDFYNRKDFRIK 323
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 0.145 0.543
Gapped
Lambda K H
0.267 0.0580 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,911,979
Number of extensions: 295523
Number of successful extensions: 431
Number of sequences better than 10.0: 1
Number of HSP's gapped: 431
Number of HSP's successfully gapped: 19
Length of query: 76
Length of database: 10,937,602
Length adjustment: 46
Effective length of query: 30
Effective length of database: 8,897,318
Effective search space: 266919540
Effective search space used: 266919540
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 (21.7 bits)
S2: 53 (24.5 bits)