RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy653
(91 letters)
>gnl|CDD|216531 pfam01496, V_ATPase_I, V-type ATPase 116kDa subunit family. This
family consists of the 116kDa V-type ATPase (vacuolar
(H+)-ATPases) subunits, as well as V-type ATP synthase
subunit i. The V-type ATPases family are proton pumps
that acidify intracellular compartments in eukaryotic
cells for example yeast central vacuoles,
clathrin-coated and synaptic vesicles. They have
important roles in membrane trafficking processes. The
116kDa subunit (subunit a) in the V-type ATPase is part
of the V0 functional domain responsible for proton
transport. The a subunit is a transmembrane
glycoprotein with multiple putative transmembrane
helices it has a hydrophilic amino terminal and a
hydrophobic carboxy terminal. It has roles in proton
transport and assembly of the V-type ATPase complex.
This subunit is encoded by two homologous gene in yeast
VPH1 and STV1.
Length = 707
Score = 30.4 bits (69), Expect = 0.093
Identities = 11/14 (78%), Positives = 11/14 (78%)
Query: 26 VSELGELGLVQFRD 39
V LGELGLVQ RD
Sbjct: 1 VDALGELGLVQIRD 14
>gnl|CDD|238353 cd00653, RNA_pol_B_RPB2, RNA polymerase beta subunit. RNA
polymerases catalyse the DNA dependent polymerization of
RNA. Prokaryotes contain a single RNA polymerase
compared to three in eukaryotes (not including
mitochondrial. and chloroplast polymerases). Each RNA
polymerase complex contains two related members of this
family, in each case they are the two largest
subunits.The clamp is a mobile structure that grips DNA
during elongation.
Length = 866
Score = 29.8 bits (68), Expect = 0.15
Identities = 16/34 (47%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 33 GLVQFRDRDIPLGYL-HFDRINSERLVSSRVGFS 65
GL Q DR PL L H RI+S L R GF
Sbjct: 312 GLSQVLDRLNPLSELSHKRRISSLGLFRERKGFE 345
>gnl|CDD|224188 COG1269, NtpI, Archaeal/vacuolar-type H+-ATPase subunit I [Energy
production and conversion].
Length = 660
Score = 26.2 bits (58), Expect = 2.4
Identities = 7/24 (29%), Positives = 11/24 (45%)
Query: 26 VSELGELGLVQFRDRDIPLGYLHF 49
++EL + GLV D + L
Sbjct: 22 LAELHDFGLVHLEDLEEGEKGLKE 45
>gnl|CDD|236731 PRK10658, PRK10658, putative alpha-glucosidase; Provisional.
Length = 665
Score = 26.0 bits (58), Expect = 2.7
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 38 RDRDIPLGYLHFD 50
+RD+PL HFD
Sbjct: 293 AERDLPLHVFHFD 305
>gnl|CDD|216268 pfam01055, Glyco_hydro_31, Glycosyl hydrolases family 31.
Glycosyl hydrolases are key enzymes of carbohydrate
metabolism. Family 31 comprises of enzymes that are, or
similar to, alpha- galactosidases.
Length = 436
Score = 26.1 bits (58), Expect = 2.9
Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 16 FLQSEAAYACVSELGELGLVQFRDRDIPLGYLHFD 50
F Q Y E+ E+ + FR+ IPL + D
Sbjct: 32 FHQCRWGYKSEDEVREV-VDGFREAGIPLDVIWLD 65
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 25.6 bits (56), Expect = 3.9
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 1 MGSLFRSEEMALCQLFLQSEAA-YACVSEL 29
+G L R EE+A FL S+ A Y S L
Sbjct: 212 LGRLGRPEEIAEAVFFLASDQASYITGSTL 241
>gnl|CDD|163693 cd08062, MPN_RPN7_8, Mpr1p, Pad1p N-terminal (MPN) domains
without catalytic isopeptidase activity, found in 19S
proteasomal subunits Rpn7 and Rpn8. This family
includes lid subunits of the 26 S proteasome regulatory
particles, Rpn7 (PSMD7; proteasome 26S non-ATPase
subunit 7; p44), and Rpn8 (PSMD8; proteasome 26S
non-ATPase subunit 8; p40; Mov34). Rpn7 is known to be
critical for the integrity of the 26 S proteasome
complex by establishing a correct lid structure. It is
necessary for the incorporation/anchoring of Rpn3 and
Rpn12 to the lid and essential for viability and normal
mitosis. Rpn7 and Rpn8 are ATP-independent components
of the 19S regulator subunit, and contain the MPN
structural motif on its N-terminal region. However,
while they show a typical MPN metalloprotease fold,
they lack the canonical JAMM motif, and therefore do
not show catalytic isopeptidase activity. It is
suggested that Rpn7 function is primarily structural.
Length = 280
Score = 25.6 bits (57), Expect = 3.9
Identities = 10/32 (31%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 48 HFDRI---NSERLVSSRVGFSDSGVIRVVPCF 76
H++R+ S+R+V +G GV+ V F
Sbjct: 16 HYNRVAKGTSKRVVGVLLGSWKKGVLDVTNSF 47
>gnl|CDD|236538 PRK09483, PRK09483, response regulator; Provisional.
Length = 217
Score = 25.5 bits (56), Expect = 4.0
Identities = 8/22 (36%), Positives = 15/22 (68%)
Query: 7 SEEMALCQLFLQSEAAYACVSE 28
+++MAL Q+ +E +A +SE
Sbjct: 130 AQQMALSQIEPATENPFASLSE 151
>gnl|CDD|225181 COG2272, PnbA, Carboxylesterase type B [Lipid metabolism].
Length = 491
Score = 25.5 bits (56), Expect = 4.4
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 43 PLGYLHFDRINSERLVSSRVGFSD 66
LG+L +++E +S +G D
Sbjct: 137 ALGFLDLSSLDTEDAFASNLGLLD 160
>gnl|CDD|182654 PRK10695, PRK10695, hypothetical protein; Provisional.
Length = 859
Score = 25.6 bits (57), Expect = 4.7
Identities = 8/32 (25%), Positives = 13/32 (40%), Gaps = 4/32 (12%)
Query: 30 GELGLVQFR--DRDIPLGYLHFDRINSERLVS 59
G L + Q R D L + I+ L++
Sbjct: 695 GHLSMSQLRLPQHDP--ALLRLNNIDLSELLT 724
>gnl|CDD|225842 COG3305, COG3305, Predicted membrane protein [Function unknown].
Length = 152
Score = 24.9 bits (54), Expect = 5.9
Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 2/33 (6%)
Query: 20 EAAYACVSELGELGLVQFR-DRDIP-LGYLHFD 50
AA+A G G +Q DRD+P L F
Sbjct: 15 LAAWAVWEFRGARGAIQATLDRDLPVLRAAGFK 47
>gnl|CDD|99992 cd03822, GT1_ecORF704_like, This family is most closely related to
the GT1 family of glycosyltransferases. ORF704 in E.
coli has been shown to be involved in the biosynthesis
of O-specific mannose homopolysaccharides.
Length = 366
Score = 24.9 bits (55), Expect = 6.7
Identities = 11/35 (31%), Positives = 14/35 (40%), Gaps = 1/35 (2%)
Query: 9 EMALCQLFLQSEAAYACVSELGELGLVQFRDRDIP 43
E + EA YA LG V F +R +P
Sbjct: 224 ETHPDLERYRGEA-YALAERLGLADRVIFINRYLP 257
>gnl|CDD|119427 cd05167, PI4Kc_III_alpha, Phosphoinositide 4-kinase (PI4K), Type
III, alpha isoform, catalytic domain; The PI4K 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. PI4Ks catalyze the transfer of
the gamma-phosphoryl group from ATP to the 4-hydroxyl of
the inositol ring of D-myo-phosphatidylinositol (PtdIns)
to generate PtdIns(4)P, the major precursor in the
synthesis of other phosphoinositides including
PtdIns(4,5)P2, PtdIns(3,4)P2, and PtdIns(3,4,5)P3. Two
isoforms of type III PI4K, alpha and beta, exist in most
eukaryotes. PI4KIIIalpha is a 220 kDa protein found in
the plasma membrane and the endoplasmic reticulum (ER).
The role of PI4KIIIalpha in the ER remains unclear. In
the plasma membrane, it provides PtdIns(4)P, which is
then converted by PI5Ks to PtdIns(4,5)P2, an important
signaling molecule. Vertebrate PI4KIIIalpha is also part
of a signaling complex associated with P2X7 ion
channels. The yeast homolog, Stt4p, is also important in
regulating the conversion of phosphatidylserine to
phosphatidylethanolamine at the ER and Golgi interface.
Mammalian PI4KIIIalpha is highly expressed in the
nervous system.
Length = 311
Score = 24.5 bits (54), Expect = 8.1
Identities = 10/25 (40%), Positives = 16/25 (64%), Gaps = 5/25 (20%)
Query: 16 FLQSEAAYACVSELGELGLVQFRDR 40
F++S AAY+ +S L+Q +DR
Sbjct: 148 FIRSMAAYSLISY-----LLQIKDR 167
>gnl|CDD|133124 cd06593, GH31_xylosidase_YicI, YicI alpha-xylosidase is a
glycosyl hydrolase family 31 (GH31) enzyme that
catalyzes the release of an alpha-xylosyl residue from
the non-reducing end of alpha-xyloside substrates such
as alpha-xylosyl fluoride and isoprimeverose. YicI
forms a homohexamer (a trimer of dimers). All GH31
enzymes cleave a terminal carbohydrate moiety from a
substrate that varies considerably in size, depending
on the enzyme, and may be either a starch or a
glycoprotein. The YicI family corresponds to subgroup 4
in the Ernst et al classification of GH31 enzymes.
Length = 308
Score = 24.6 bits (54), Expect = 9.2
Identities = 5/15 (33%), Positives = 9/15 (60%)
Query: 36 QFRDRDIPLGYLHFD 50
R+R++P +H D
Sbjct: 32 GMRERNLPCDVIHLD 46
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
0.327 0.141 0.450
Gapped
Lambda K H
0.267 0.0740 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,451,294
Number of extensions: 358085
Number of successful extensions: 299
Number of sequences better than 10.0: 1
Number of HSP's gapped: 299
Number of HSP's successfully gapped: 15
Length of query: 91
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 33
Effective length of database: 8,365,070
Effective search space: 276047310
Effective search space used: 276047310
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 (24.2 bits)