RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11170
(111 letters)
>gnl|CDD|203059 pfam04627, ATP-synt_Eps, Mitochondrial ATP synthase epsilon
chain. This family constitutes the mitochondrial ATP
synthase epsilon subunit. This is not to be confused
with the bacterial epsilon subunit, which is homologous
to the mitochondrial delta subunit (pfam00401 and
pfam02823) The epsilon subunit is located in the
extrinsic membrane section F1, which is the catalytic
site of ATP synthesis. The epsilon subunit was not well
ordered in the crystal structure of bovine F1, but it
is known to be located in the stalk region of F1. E
subunit is thought to be involved in the regulation of
ATP synthase, since a null mutation increased
oligomycin sensitivity and decreased inhibition by
inhibitor protein IF1.
Length = 49
Score = 73.8 bits (182), Expect = 3e-19
Identities = 25/40 (62%), Positives = 31/40 (77%)
Query: 39 YIQYSNIAARTLRRALKTEFRADAEKREESFIRITPWKDG 78
Y +YSNIAAR +RRALK E RA AE+R ES ++ T WK+G
Sbjct: 10 YNRYSNIAARAVRRALKPELRAAAERRGESEVKFTKWKNG 49
>gnl|CDD|213396 cd12153, F1-ATPase_epsilon, eukaryotic mitochondrial ATP synthase
epsilon subunit. The F-ATPase is found in bacterial
plasma membranes, mitochondrial inner membranes, and in
chloroplast thylakoid membranes. It uses a proton
gradient to drive ATP synthesis and hydrolyzes ATP to
build the proton gradient. The extrinsic membrane
domain, F1, is composed of alpha, beta, gamma, delta,
and epsilon subunits (only found in eukaryotes, lacking
in bacteria) with a stoichiometry of 3:3:1:1:1. Alpha
and beta subunit form the globular catalytic moiety, a
hexameric ring of alternating subunits. Gamma, delta
and epsilon subunits form a stalk, connecting F1 to F0,
the integral membrane proton translocating domain.The
epsilon subunit is thought to be involved in the
regulation of ATP synthase, since a null mutation
increased oligomycin sensitivity and decreased
inhibition by inhibitor protein IF1.
Length = 45
Score = 64.2 bits (157), Expect = 2e-15
Identities = 23/37 (62%), Positives = 28/37 (75%)
Query: 39 YIQYSNIAARTLRRALKTEFRADAEKREESFIRITPW 75
Y++YSNI AR LRRALK FRA A KREE+ ++ T W
Sbjct: 9 YLRYSNICARALRRALKEPFRAKALKREETELKQTKW 45
>gnl|CDD|180720 PRK06836, PRK06836, aspartate aminotransferase; Provisional.
Length = 394
Score = 28.2 bits (64), Expect = 0.82
Identities = 12/22 (54%), Positives = 14/22 (63%), Gaps = 3/22 (13%)
Query: 16 MSNMGYDDKRQAIQFSAEVLNR 37
M N GY + R+AI AE LNR
Sbjct: 70 MPNAGYPEVREAI---AESLNR 88
>gnl|CDD|215352 PLN02652, PLN02652, hydrolase; alpha/beta fold family protein.
Length = 395
Score = 27.2 bits (60), Expect = 1.8
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 84 YSEPLHYVTPILLQDDLDIFSISTPLLH 111
YS+PL Y PI ++ +I IS+ L
Sbjct: 291 YSDPLVYTGPIRVRTGHEILRISSYLTR 318
>gnl|CDD|215423 PLN02789, PLN02789, farnesyltranstransferase.
Length = 320
Score = 26.6 bits (59), Expect = 2.8
Identities = 10/29 (34%), Positives = 12/29 (41%)
Query: 51 RRALKTEFRADAEKREESFIRITPWKDGK 79
RR L + DA +E F R D K
Sbjct: 112 RRWLAEKLGPDAANKELEFTRKILSLDAK 140
>gnl|CDD|192224 pfam09187, DUF1950, Domain of unknown function(DUF1950). Members
of this family pertain to a set of functionally
uncharacterized hypothetical eukaryotic proteins.
Length = 119
Score = 26.1 bits (57), Expect = 3.3
Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 67 ESFIRITPWKD-GKPIRH-YSEPLHYVTPILLQ 97
S I T W+ G ++ Y +PLHY+T +LLQ
Sbjct: 22 GSHIPNTTWRGLGNSMKQLYGQPLHYLTNVLLQ 54
>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 1525
Score = 26.2 bits (57), Expect = 4.4
Identities = 19/77 (24%), Positives = 33/77 (42%)
Query: 34 VLNRCYIQYSNIAARTLRRALKTEFRADAEKREESFIRITPWKDGKPIRHYSEPLHYVTP 93
V N Y+ + A + L+T+ + + + E+SF+R+ +K+ + P VT
Sbjct: 204 VENSEYLVLRKLFAEFVDIGLETDKKIEKQTLEDSFVRMLDFKEDPVLGLVCSPQDGVTV 263
Query: 94 ILLQDDLDIFSISTPLL 110
L L I LL
Sbjct: 264 SLSDLLLIILKYDLQLL 280
>gnl|CDD|130870 TIGR01811, sdhA_Bsu, succinate dehydrogenase or fumarate reductase,
flavoprotein subunit, Bacillus subtilis subgroup. This
model represents the succinate dehydrogenase
flavoprotein subunit as found in the low-GC
Gram-positive bacteria and a few other lineages. This
enzyme may act in a complete or partial TCA cycle, or
act in the opposite direction as fumarate reductase. In
some but not all species, succinate dehydrogenase and
fumarate reductase may be encoded as separate isozymes
[Energy metabolism, TCA cycle].
Length = 603
Score = 26.0 bits (57), Expect = 5.6
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 7/39 (17%)
Query: 61 DAEKREESFIRITPWK----DGKPIRHYSEPL--HYVTP 93
+AE+ +E F+++T W+ + P HY E L V P
Sbjct: 561 EAERNDEEFLKVTAWEFQGENDAPEFHY-EELDFELVPP 598
>gnl|CDD|185000 PRK15040, PRK15040, L-serine dehydratase TdcG; Provisional.
Length = 454
Score = 25.8 bits (56), Expect = 6.0
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 58 FRADAEKREESFIRITPWKDGKPIRH 83
F + R E+ +RIT WK + +
Sbjct: 115 FHPEMLPRHENGMRITAWKGQEELLS 140
>gnl|CDD|180915 PRK07275, PRK07275, single-stranded DNA-binding protein;
Provisional.
Length = 162
Score = 25.2 bits (55), Expect = 7.3
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 43 SNIAARTLRRALKTEFRADAEKREESFIRITPWK 76
SN+A T A+ F++ +RE FI W+
Sbjct: 22 SNVAVATFTLAVNRTFKSQNGEREADFINCVIWR 55
>gnl|CDD|215325 PLN02605, PLN02605, monogalactosyldiacylglycerol synthase.
Length = 382
Score = 25.3 bits (56), Expect = 8.3
Identities = 19/71 (26%), Positives = 27/71 (38%), Gaps = 21/71 (29%)
Query: 30 FSAEVLNRCYIQYSNIAARTLRRALKTEFRADAEKREESFIRITPWKDGKPIRHYSEPLH 89
F V RC+ +A R L+R L E S IR+ G PIR
Sbjct: 147 FHKGV-TRCFCPSEEVAKRALKRGL-----------EPSQIRVY----GLPIRP-----S 185
Query: 90 YVTPILLQDDL 100
+ + +D+L
Sbjct: 186 FARAVRPKDEL 196
>gnl|CDD|131115 TIGR02060, aprB, adenosine phosphosulphate reductase, beta subunit.
During dissimilatory sulfate reduction and sulfur
oxidation, adenylylsulfate (APS) reductase catalyzes
reversibly the two-electron reduction of APS to sulfite
and AMP. Found in several bacterial lineages and in
Archaeoglobales, APS reductase is a heterodimer composed
of an alpha subunit containing a noncovalently bound
FAD, and a beta subunit containing two [4Fe-4S]
clusters. Described by this model is the beta subunit of
APS reductase, sharing common evolutionary origin with
other iron-sulfur cluster-binding proteins [Central
intermediary metabolism, Sulfur metabolism].
Length = 132
Score = 24.9 bits (54), Expect = 8.9
Identities = 11/30 (36%), Positives = 12/30 (40%)
Query: 58 FRADAEKREESFIRITPWKDGKPIRHYSEP 87
FR R + IR TPW P EP
Sbjct: 92 FRNGKVMRFKFPIRTTPWGSITPFEGVPEP 121
>gnl|CDD|233250 TIGR01052, top6b, DNA topoisomerase VI, B subunit. This model
describes DNA topoisomerase VI, an archaeal type II DNA
topoisomerase (DNA gyrase) [DNA metabolism, DNA
replication, recombination, and repair].
Length = 488
Score = 25.2 bits (55), Expect = 9.8
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 47 ARTLRRALKTEFRADAEKREESFIRIT 73
A TLR L +EF EK+ + +
Sbjct: 246 ASTLRSFLVSEFSRIGEKKIKELLEKY 272
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
0.324 0.138 0.410
Gapped
Lambda K H
0.267 0.0705 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,746,903
Number of extensions: 490786
Number of successful extensions: 524
Number of sequences better than 10.0: 1
Number of HSP's gapped: 524
Number of HSP's successfully gapped: 24
Length of query: 111
Length of database: 10,937,602
Length adjustment: 75
Effective length of query: 36
Effective length of database: 7,611,052
Effective search space: 273997872
Effective search space used: 273997872
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (24.2 bits)