RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2837
(107 letters)
>gnl|CDD|213299 cd05933, ACSBG_like, Bubblegum-like very long-chain fatty acid CoA
synthetase (VL-FACS). This family of very long-chain
fatty acid CoA synthetase is named bubblegum because
Drosophila melanogaster mutant bubblegum (BGM) has
elevated levels of very-long-chain fatty acids (VLCFA)
caused by a defective gene of this family. The human
homolog (hsBG) has been characterized as a very long
chain fatty acid CoA synthetase that functions
specifically in the brain; hsBG may play a central role
in brain VLCFA metabolism and myelinogenesis. VL-FACS is
involved in the first reaction step of very long chain
fatty acid degradation. It catalyzes the formation of
fatty acyl-CoA in a two-step reaction: the formation of
a fatty acyl-AMP molecule as an intermediate, and the
formation of a fatty acyl-CoA. Free fatty acids must be
"activated" to their CoA thioesters before participating
in most catabolic and anabolic reactions.
Length = 594
Score = 147 bits (374), Expect = 3e-43
Identities = 57/118 (48%), Positives = 76/118 (64%), Gaps = 16/118 (13%)
Query: 4 DKKKFLSMLLALRTKMNADTGEPLDELETDTKDWLKSLG----------------VYKAT 47
DK+KFLSMLL L+ +++ +TGEPLD L + ++ + LG VY+A
Sbjct: 477 DKRKFLSMLLTLKCEVDPETGEPLDNLTEEAIEFCRLLGSHATTVSEILAGKDPLVYEAI 536
Query: 48 QAAIDRANLKSISNAQKIQKFEFLPADFSIPTGELGPTMKVKRPFVVKKYQSIIDKFY 105
+ I R N ++ISNAQK+QK+ L DFS+P GELGPTMK+KRP V KKY+ IDK Y
Sbjct: 537 EEGIKRVNKEAISNAQKVQKWVILEKDFSVPGGELGPTMKLKRPVVAKKYKDEIDKLY 594
>gnl|CDD|213275 cd05907, VL_LC_FACS_like, Long-chain fatty acid CoA synthetases and
Bubblegum-like very long-chain fatty acid CoA
synthetases. This family includes long-chain fatty acid
(C12-C20) CoA synthetases and Bubblegum-like very
long-chain (>C20) fatty acid CoA synthetases. FACS
catalyzes the formation of fatty acyl-CoA in a two-step
reaction: the formation of a fatty acyl-AMP molecule as
an intermediate, and the formation of a fatty acyl-CoA.
Eukaryotes generally have multiple isoforms of LC-FACS
genes with multiple splice variants. For example, nine
genes are found in Arabidopsis and six genes are
expressed in mammalian cells. Drosophila melanogaster
mutant bubblegum (BGM) have elevated levels of
very-long-chain fatty acids (VLCFA) caused by a
defective gene later named bubblegum. The human homolog
(hsBG) of bubblegum has been characterized as a very
long chain fatty acid CoA synthetase that functions
specifically in the brain; hsBG may play a central role
in brain VLCFA metabolism and myelinogenesis. Free fatty
acids must be "activated" to their CoA thioesters before
participating in most catabolic and anabolic reactions.
Length = 456
Score = 70.3 bits (173), Expect = 1e-15
Identities = 27/90 (30%), Positives = 44/90 (48%), Gaps = 1/90 (1%)
Query: 4 DKKKFLSMLLALRTKMNADTGEPLDELETDTKDWLKSLGVYKATQAAIDRANLKSISNAQ 63
D + +L+ L+ L + E T D + V + ++ AN ++ +
Sbjct: 368 DDRPYLTALIVLDPEALEKWAEQHGLPFTTYADLAEDPEVRALIRKEVEEAN-ARLARVE 426
Query: 64 KIQKFEFLPADFSIPTGELGPTMKVKRPFV 93
+I+KF LP +FSI GEL PTMK++R V
Sbjct: 427 QIKKFVLLPKEFSIEDGELTPTMKLRRRVV 456
>gnl|CDD|223953 COG1022, FAA1, Long-chain acyl-CoA synthetases (AMP-forming) [Lipid
metabolism].
Length = 613
Score = 51.2 bits (123), Expect = 8e-09
Identities = 19/61 (31%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 45 KATQAAIDRANLKSISNAQKIQKFEFLPADFSIPTGELGPTMKVKRPFVVKKYQSIIDKF 104
K +++ N + ++I+KF LP +F+ GEL PT+K+KR ++ +Y+ I+
Sbjct: 548 KLILPRVNKGNKRL-FGFEQIKKFVLLPKEFTPENGELTPTLKLKRHVILDRYKDEIEAV 606
Query: 105 Y 105
Y
Sbjct: 607 Y 607
>gnl|CDD|213293 cd05927, LC-FACS_euk, Eukaryotic long-chain fatty acid CoA
synthetase (LC-FACS). The members of this family are
eukaryotic fatty acid CoA synthetases that activate
fatty acids with chain lengths of 12 to 20. LC-FACS
catalyzes the formation of fatty acyl-CoA in a two-step
reaction: the formation of a fatty acyl-AMP molecule as
an intermediate, and the formation of a fatty acyl-CoA.
This is a required step before free fatty acids can
participate in most catabolic and anabolic reactions.
Organisms tend to have multiple isoforms of LC-FACS
genes with multiple splice variants. For example, nine
genes are found in Arabidopsis and six genes are
expressed in mammalian cells.
Length = 539
Score = 45.6 bits (109), Expect = 7e-07
Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 56 LKSISNAQKIQKFEFL------PADFSIPTGELGPTMKVKRPFVVKKYQSIIDKFY 105
L I ++ FE + P F+ G L PT K+KRP + K+Y+ ID+ Y
Sbjct: 484 LNEIGKENGLKGFEIVKAIHLTPEPFTPENGLLTPTFKLKRPQLKKRYKKEIDEMY 539
>gnl|CDD|178337 PLN02736, PLN02736, long-chain acyl-CoA synthetase.
Length = 651
Score = 38.5 bits (90), Expect = 2e-04
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 6/59 (10%)
Query: 54 ANLKSISNAQKIQKFEF------LPADFSIPTGELGPTMKVKRPFVVKKYQSIIDKFYD 106
A++ ++ +++ FEF +P F++ G L PT KVKRP + I Y
Sbjct: 590 ADMDAVGREAQLRGFEFAKAVTLVPEPFTVENGLLTPTFKVKRPQAKAYFAKAISDMYA 648
>gnl|CDD|178452 PLN02861, PLN02861, long-chain-fatty-acid-CoA ligase.
Length = 660
Score = 37.5 bits (87), Expect = 4e-04
Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 56 LKSISNAQKIQKFEFL------PADFSIPTGELGPTMKVKRPFVVKKYQSIIDKFY 105
L S +++ FE L P F I + PT K+KRP ++K Y+ ID+ Y
Sbjct: 597 LNSTGKKLQLRGFEMLKAIHLEPNPFDIERDLITPTFKLKRPQLLKYYKDCIDQLY 652
>gnl|CDD|166255 PLN02614, PLN02614, long-chain acyl-CoA synthetase.
Length = 666
Score = 36.5 bits (84), Expect = 0.001
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 6/56 (10%)
Query: 56 LKSISNAQKIQKFEFL------PADFSIPTGELGPTMKVKRPFVVKKYQSIIDKFY 105
L ++ +K++ FE + P F + L PT K KRP ++K YQS+ID+ Y
Sbjct: 600 LVKMAKEKKMKGFEIIKAIHLDPVPFDMERDLLTPTFKKKRPQLLKYYQSVIDEMY 655
>gnl|CDD|178049 PLN02430, PLN02430, long-chain-fatty-acid-CoA ligase.
Length = 660
Score = 33.6 bits (77), Expect = 0.011
Identities = 21/89 (23%), Positives = 37/89 (41%), Gaps = 14/89 (15%)
Query: 31 ETDTKDWLKSLGVYKATQAAIDR--------ANLKSISNAQKIQKFEFL------PADFS 76
E +T W K G + + + LKS + K++ FE++ F
Sbjct: 564 EENTNKWAKDNGFTGSFEELCSLPELKEHILSELKSTAEKNKLRGFEYIKGVILETKPFD 623
Query: 77 IPTGELGPTMKVKRPFVVKKYQSIIDKFY 105
+ + T+K +R ++K YQ ID+ Y
Sbjct: 624 VERDLVTATLKKRRNNLLKYYQVEIDEMY 652
>gnl|CDD|240370 PTZ00342, PTZ00342, acyl-CoA synthetase; Provisional.
Length = 746
Score = 28.9 bits (65), Expect = 0.50
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 82 LGPTMKVKRPFVVKKYQSIIDK 103
L PT KVKR +V K Y ID+
Sbjct: 717 LTPTFKVKRFYVFKDYAFFIDQ 738
>gnl|CDD|218801 pfam05896, NQRA, Na(+)-translocating NADH-quinone reductase subunit
A (NQRA). This family consists of several bacterial
Na(+)-translocating NADH-quinone reductase subunit A
(NQRA) proteins. The Na(+)-translocating NADH:
ubiquinone oxidoreductase (Na(+)-NQR) generates an
electrochemical Na(+) potential driven by aerobic
respiration.
Length = 257
Score = 27.9 bits (63), Expect = 0.83
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 7/50 (14%)
Query: 57 KSISNAQKIQKFEFLPADFSIPTGELGPTMKVKRPFVVKKYQSIIDKFYD 106
+ I + ++ L D+ G + P M VK VK Q + F D
Sbjct: 18 QEIEDGPAVRTVALLGEDYV---G-MKPKMLVKEGDKVKAGQPL---FED 60
>gnl|CDD|226631 COG4152, COG4152, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 300
Score = 26.6 bits (59), Expect = 2.6
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 7/45 (15%)
Query: 24 GEPLDELETDTKDWLKSLGVYKATQAAIDRANLKSIS--NAQKIQ 66
G P E++ + WL+ L + I K +S N QKIQ
Sbjct: 101 GMPKAEIQKKLQAWLERLEIVGKKTKKI-----KELSKGNQQKIQ 140
>gnl|CDD|213298 cd05932, LC_FACS_bac, Bacterial long-chain fatty acid CoA
synthetase (LC-FACS), including Marinobacter
hydrocarbonoclasticus isoprenoid Coenzyme A synthetase.
The members of this family are bacterial long-chain
fatty acid CoA synthetase. Marinobacter
hydrocarbonoclasticus isoprenoid Coenzyme A synthetase
in this family is involved in the synthesis of
isoprenoid wax ester storage compounds when grown on
phytol as the sole carbon source. LC-FACS catalyzes the
formation of fatty acyl-CoA in a two-step reaction: the
formation of a fatty acyl-AMP molecule as an
intermediate, and the formation of a fatty acyl-CoA.
Free fatty acids must be "activated" to their CoA
thioesters before participating in most catabolic and
anabolic reactions.
Length = 504
Score = 26.8 bits (60), Expect = 2.6
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 75 FSIPTGELGPTMKVKRPFVVKKY 97
+++ G L PT+K+KR V K Y
Sbjct: 482 WTVENGLLTPTLKIKRNVVEKHY 504
>gnl|CDD|215345 PLN02641, PLN02641, anthranilate phosphoribosyltransferase.
Length = 343
Score = 26.6 bits (59), Expect = 2.8
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 61 NAQKIQKFEFLPADFSIPTGEL 82
+KI++F F P DF IP L
Sbjct: 238 TPEKIEEFSFDPLDFGIPRCTL 259
>gnl|CDD|227315 COG4982, COG4982, 3-oxoacyl-[acyl-carrier protein].
Length = 866
Score = 25.6 bits (56), Expect = 7.4
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 9 LSMLLALRTKMNADTGEPLDELET 32
L L+AL+ K D E LD +E
Sbjct: 59 LHALVALKLKKRIDQIEALDSIED 82
>gnl|CDD|213982 cd12107, Hemerythrin, Hemerythrin. Hemerythrin (Hr) is a non-heme
diiron oxygen transport protein found in four marine
invertebrate phyla including priapulida, brachiopoda,
sipunculida, and annelida, as well as in protozoa.
Myohemerythrin (Mhr), a hemerythrin homolog, is found in
the muscle tissue of sipunculids as well as in
polycheate and oligocheate annelids. In addition to
oxygen transport, Mhr proteins are involved in cadmium
fixation and host anti-bacterial defense. Hr and Mhr
proteins have the same "four alpha helix bundle" motif
and active site structure. Hr forms oligomers, the
octameric form being most prevalent, while Mhr is
monomeric.
Length = 113
Score = 24.6 bits (54), Expect = 7.9
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 6 KKFLSMLLALRTKMNADTGEPLDELETDTKDWL 38
++FL L L+ ++ A E +EL KDWL
Sbjct: 68 RRFLEKLEELKARLEAGDLELAEELLDFLKDWL 100
>gnl|CDD|180919 PRK07282, PRK07282, acetolactate synthase catalytic subunit;
Reviewed.
Length = 566
Score = 25.2 bits (55), Expect = 8.7
Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 12/39 (30%)
Query: 3 SDKKKFLSMLLALRTKMNADTGEPLDELETDTKDWLKSL 41
D KK L MLLA + +T+ W++ +
Sbjct: 326 GDAKKALQMLLA------------EPTVHNNTEKWIEKV 352
>gnl|CDD|185759 cd09220, GH64-GluB-like, glycoside hydrolase family 64:
beta-1,3-glucanase B (GluB)-like. This subfamily is
represented by GluB, beta-1,3-glucanase B , from
Lysobacter enzymogenes Strain N4-7 and related
bacterial and ascomycete proteins. GluB is a member of
the glycoside hydrolase family 64 (GH64) involved in
the cleavage of long-chain polysaccharide
beta-1,3-glucans, into specific pentasaccharide
oligomers. Among bacteria, many beta-1,3-glucanases are
implicated in fungal cell wall degradation. GluB
possesses the conserved Glu and Asp residues required
to cleave substrate beta-1,3-glucans. Recombinant GluB
demonstrated higher relative activity toward the
branched-chain beta-1,3 glucan substrate zymosan A than
toward linear beta-1,3 glucan substrates. Based on the
structure of laminaripentaose-producing,
beta-1,3-glucanase (LPHase) of Streptomyces matensis,
which belongs to the same family as GluB but to a
different subfamily, this cd is a two-domain model.
Sometimes these two domains are found associated with
other domains such as in the Catenulispora acidiphila
DSM 44928 carbohydrate binding family 6 protein in
which they are positioned N-terminal of a carbohydrate
binding module, family 6 (CBM_6) domain.
Length = 369
Score = 25.0 bits (55), Expect = 9.6
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 71 LPADFSIPTGELGPTMKVKRP 91
L AD +IP G G T V P
Sbjct: 51 LGADCAIPLGAPGSTTTVTIP 71
>gnl|CDD|235426 PRK05352, PRK05352, Na(+)-translocating NADH-quinone reductase
subunit A; Provisional.
Length = 448
Score = 25.1 bits (56), Expect = 9.7
Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 7/50 (14%)
Query: 57 KSISNAQKIQKFEFLPADFSIPTGELGPTMKVKRPFVVKKYQSIIDKFYD 106
+ I + + L D+ G L P MKVK VKK Q + F D
Sbjct: 19 QVIEDGPAPKTVALLGEDYV---G-LRPKMKVKEGDKVKKGQPL---FED 61
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 0.133 0.372
Gapped
Lambda K H
0.267 0.0827 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,278,598
Number of extensions: 426350
Number of successful extensions: 413
Number of sequences better than 10.0: 1
Number of HSP's gapped: 410
Number of HSP's successfully gapped: 27
Length of query: 107
Length of database: 10,937,602
Length adjustment: 72
Effective length of query: 35
Effective length of database: 7,744,114
Effective search space: 271043990
Effective search space used: 271043990
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)