RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10058
(59 letters)
>gnl|CDD|234677 PRK00174, PRK00174, acetyl-CoA synthetase; Provisional.
Length = 637
Score = 124 bits (315), Expect = 1e-35
Identities = 39/54 (72%), Positives = 49/54 (90%)
Query: 5 PQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLTP 58
P+K+DL+SLR+LGSVGEPINPEAW+WYY +GG +C IVDT+WQTETGG ++TP
Sbjct: 361 PKKYDLSSLRLLGSVGEPINPEAWEWYYKVVGGERCPIVDTWWQTETGGIMITP 414
>gnl|CDD|213313 cd05966, ACS, Acetyl-CoA synthetase (also known as acetate-CoA
ligase and acetyl-activating enzyme). Acetyl-CoA
synthetase (ACS) catalyzes the formation of acetyl-CoA
from acetate, CoA, and ATP. Synthesis of acetyl-CoA is
carried out in a two-step reaction. In the first step,
the enzyme catalyzes the synthesis of acetyl-AMP
intermediate from acetate and ATP. In the second step,
acetyl-AMP reacts with CoA to produce acetyl-CoA. This
enzyme is widely present in all living organisms. The
activity of this enzyme is crucial for maintaining the
required levels of acetyl-CoA, a key intermediate in
many important biosynthetic and catabolic processes.
Acetyl-CoA is used in the biosynthesis of glucose, fatty
acids, and cholesterol. It can also be used in the
production of energy in the citric acid cycle.
Eukaryotes typically have two isoforms of acetyl-CoA
synthetase, a cytosolic form involved in biosynthetic
processes and a mitochondrial form primarily involved in
energy generation.
Length = 602
Score = 123 bits (310), Expect = 5e-35
Identities = 41/55 (74%), Positives = 49/55 (89%)
Query: 4 YPQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLTP 58
+P+KHDL+SLR+LGSVGEPINPEAW WYY IG +C IVDT+WQTETGGH++TP
Sbjct: 340 WPKKHDLSSLRLLGSVGEPINPEAWMWYYEVIGKERCPIVDTWWQTETGGHMITP 394
>gnl|CDD|233770 TIGR02188, Ac_CoA_lig_AcsA, acetate--CoA ligase. This model
describes acetate-CoA ligase (EC 6.2.1.1), also called
acetyl-CoA synthetase and acetyl-activating enzyme. It
catalyzes the reaction ATP + acetate + CoA = AMP +
diphosphate + acetyl-CoA and belongs to the family of
AMP-binding enzymes described by pfam00501.
Length = 625
Score = 118 bits (298), Expect = 2e-33
Identities = 38/54 (70%), Positives = 46/54 (85%)
Query: 5 PQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLTP 58
+KHDL+SLR+LGSVGEPINPEAW WYY +G +C IVDT+WQTETGG ++TP
Sbjct: 352 VKKHDLSSLRLLGSVGEPINPEAWMWYYKVVGKERCPIVDTWWQTETGGIMITP 405
>gnl|CDD|215353 PLN02654, PLN02654, acetate-CoA ligase.
Length = 666
Score = 86.1 bits (213), Expect = 6e-22
Identities = 33/55 (60%), Positives = 43/55 (78%)
Query: 4 YPQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLTP 58
Y +H SLRVLGSVGEPINP AW+W+++ +G +C I DT+WQTETGG ++TP
Sbjct: 390 YVTRHSRKSLRVLGSVGEPINPSAWRWFFNVVGDSRCPISDTWWQTETGGFMITP 444
>gnl|CDD|223442 COG0365, Acs, Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases
[Lipid metabolism].
Length = 528
Score = 82.3 bits (204), Expect = 1e-20
Identities = 27/55 (49%), Positives = 39/55 (70%), Gaps = 3/55 (5%)
Query: 5 PQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLTPR 59
+ +DL+SLRVLGS GEP+NPEA++W+Y ++G I+D + QTETG + R
Sbjct: 284 GEPYDLSSLRVLGSAGEPLNPEAFEWFYSALG---VWILDIYGQTETGMGFIAGR 335
>gnl|CDD|213315 cd05968, AACS_like, Uncharacterized acyl-CoA synthetase subfamily
similar to Acetoacetyl-CoA synthetase. This
uncharacterized acyl-CoA synthetase family is highly
homologous to acetoacetyl-CoA synthetase. However, the
proteins in this family exist in only bacteria and
archaea. AACS is a cytosolic ligase that specifically
activates acetoacetate to its coenzyme A ester by a
two-step reaction. Acetoacetate first reacts with ATP to
form an acyl-adenylate intermediate, which then reacts
with CoA to produce an acyl-CoA ester. This is the first
step of the mevalonate pathway of isoprenoid
biosynthesis via isopentenyl diphosphate. Isoprenoids
are a large class of compounds found in all living
organisms.
Length = 474
Score = 66.1 bits (162), Expect = 6e-15
Identities = 25/58 (43%), Positives = 36/58 (62%)
Query: 1 MLSYPQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLTP 58
+ + HDL+SLRVLGS GEP +PE+W W + +GGG+ I++ TE G +L
Sbjct: 211 GDAPVEGHDLSSLRVLGSTGEPWDPESWLWLFERVGGGRAPIINYSGGTEISGGILGN 268
>gnl|CDD|235279 PRK04319, PRK04319, acetyl-CoA synthetase; Provisional.
Length = 570
Score = 59.1 bits (144), Expect = 2e-12
Identities = 24/50 (48%), Positives = 32/50 (64%), Gaps = 3/50 (6%)
Query: 6 QKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHV 55
+K+DL+SLR + SVGEP+NPE +W G I D +W TETGG +
Sbjct: 318 KKYDLSSLRHILSVGEPLNPEVVRWGMKVFG---LPIHDNWWMTETGGIM 364
>gnl|CDD|213316 cd05969, MACS_like_4, Uncharacterized subfamily of Acetyl-CoA
synthetase like family (ACS). This family is most
similar to acetyl-CoA synthetase. Acetyl-CoA synthetase
(ACS) catalyzes the formation of acetyl-CoA from
acetate, CoA, and ATP. Synthesis of acetyl-CoA is
carried out in a two-step reaction. In the first step,
the enzyme catalyzes the synthesis of acetyl-AMP
intermediate from acetate and ATP. In the second step,
acetyl-AMP reacts with CoA to produce acetyl-CoA. This
enzyme is only present in bacteria.
Length = 443
Score = 53.6 bits (129), Expect = 2e-10
Identities = 24/47 (51%), Positives = 31/47 (65%), Gaps = 3/47 (6%)
Query: 7 KHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGG 53
++DL+SLR + SVGEP+NPE W +G I DT+WQTETG
Sbjct: 203 RYDLSSLRHIASVGEPLNPEVVVWGEKVLG---MPIHDTWWQTETGA 246
>gnl|CDD|215954 pfam00501, AMP-binding, AMP-binding enzyme.
Length = 412
Score = 53.1 bits (128), Expect = 3e-10
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 6 QKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLTPR 59
+K+DL+SLR++ S GEP+ PE + G +V+ + TET
Sbjct: 242 KKYDLSSLRLVLSGGEPLPPELLRRLRE--RFGGVPLVNGYGPTETTVVATANL 293
>gnl|CDD|213270 cd04433, AFD_class_I, Adenylate forming domain, Class I. This
family includes acyl- and aryl-CoA ligases, as well as
the adenylation domain of nonribosomal peptide
synthetases and firefly luciferases. The
adenylate-forming enzymes catalyze an ATP-dependent
two-step reaction to first activate a carboxylate
substrate as an adenylate and then transfer the
carboxylate to the pantetheine group of either coenzyme
A or an acyl-carrier protein. The active site of the
domain is located at the interface of a large N-terminal
subdomain and a smaller C-terminal subdomain.
Length = 338
Score = 48.4 bits (116), Expect = 1e-08
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 7 KHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLTP 58
+DL+SLR+L S GEP++PE + + I++ + TET T
Sbjct: 112 GYDLSSLRLLISGGEPLSPELLERFE---ERPGAPILEGYGLTETSVVTSTN 160
>gnl|CDD|182517 PRK10524, prpE, propionyl-CoA synthetase; Provisional.
Length = 629
Score = 46.9 bits (112), Expect = 3e-08
Identities = 21/52 (40%), Positives = 31/52 (59%), Gaps = 3/52 (5%)
Query: 6 QKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLT 57
+KHDL+SLR L GEP++ W ++G ++D +WQTETG +L
Sbjct: 350 RKHDLSSLRALFLAGEPLDEPTASWISEALG---VPVIDNYWQTETGWPILA 398
>gnl|CDD|131369 TIGR02316, propion_prpE, propionate--CoA ligase. This family
contains one of three readily separable clades of
proteins in the group of acetate and propionate--CoA
ligases. Characterized members of this family act on
propionate. From propionyl-CoA, there is a cyclic
degradation pathway: it is ligated by PrpC to the TCA
cycle intermediate oxaloacetate, acted upon further by
PrpD and an aconitase, then cleaved by PrpB to pyruvate
and the TCA cycle intermediate succinate.
Length = 628
Score = 45.3 bits (107), Expect = 1e-07
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Query: 6 QKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVL 56
+KHDL+SL L GEP++ W +G ++D +WQTETG VL
Sbjct: 349 RKHDLSSLHWLFLAGEPLDEPTAHWITDGLGK---PVIDNYWQTETGWPVL 396
>gnl|CDD|213314 cd05967, PrpE, Propionyl-CoA synthetase (PrpE). PrpE catalyzes the
first step of the 2-methylcitric acid cycle for
propionate catabolism. It activates propionate to
propionyl-CoA in a two-step reaction, which proceeds
through a propionyl-AMP intermediate and requires ATP
and Mg2+. In Salmonella enterica, the PrpE protein is
required for growth of S. enterica on propionate and can
substitute for the acetyl-CoA synthetase (Acs) enzyme
during growth on acetate. PrpE can also activate
acetate, 3HP, and butyrate to their corresponding
CoA-thioesters, although with less efficiency.
Length = 607
Score = 42.7 bits (101), Expect = 1e-06
Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 3/56 (5%)
Query: 3 SYPQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLTP 58
Y +K+DL+SLR L GE ++ +W ++G ++D +WQTETG +
Sbjct: 337 EYIKKYDLSSLRALFLAGERLDSPTLEWIEKTLG---VPVIDHWWQTETGWPITAN 389
>gnl|CDD|213319 cd05972, MACS_like, Medium-chain acyl-CoA synthetase (MACS or
ACSM). 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. The acyl-CoA is a key
intermediate in many important biosynthetic and
catabolic processes.
Length = 430
Score = 41.2 bits (97), Expect = 4e-06
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 5 PQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETG 52
+D + LR + S GEP+NPE W+ + G I D + QTETG
Sbjct: 191 LSSYDFSHLRHVVSAGEPLNPEVIDWWRAATG---LPIRDGYGQTETG 235
>gnl|CDD|213320 cd05973, MACS_like_2, 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 = 440
Score = 41.3 bits (97), Expect = 4e-06
Identities = 19/42 (45%), Positives = 26/42 (61%), Gaps = 3/42 (7%)
Query: 11 NSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETG 52
LRV S GEP+NPE +W+ ++G +I D + QTETG
Sbjct: 205 LKLRVASSAGEPLNPEVVRWFQANLG---VTIHDHYGQTETG 243
>gnl|CDD|235134 PRK03584, PRK03584, acetoacetyl-CoA synthetase; Provisional.
Length = 655
Score = 38.2 bits (90), Expect = 4e-05
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 8 HDLNSLRVLGSVGEPINPEAWQWYYHSIG 36
HDL++LR +GS G P+ PE + W Y +
Sbjct: 380 HDLSALRTIGSTGSPLPPEGFDWVYEHVK 408
>gnl|CDD|213308 cd05943, AACS, Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase,
AACS). AACS is a cytosolic ligase that specifically
activates acetoacetate to its coenzyme A ester by a
two-step reaction. Acetoacetate first reacts with ATP to
form an acyl-adenylate intermediate, which then reacts
with CoA to produce an acyl-CoA ester. This is the first
step of the mevalonate pathway of isoprenoid
biosynthesis via isopentenyl diphosphate. Isoprenoids
are a large class of compounds found in all living
organisms. AACS is widely distributed in bacteria,
archaea and eukaryotes. In bacteria, AACS is known to
exhibit an important role in the metabolism of
poly-b-hydroxybutyrate, an intracellular reserve of
organic carbon and chemical energy by some
microorganisms. In mammals, AACS influences the rate of
ketone body utilization for the formation of
physiologically important fatty acids and cholesterol.
Length = 616
Score = 36.1 bits (84), Expect = 2e-04
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 8 HDLNSLRVLGSVGEPINPEAWQWYYHSI 35
HDL+SLR + S G P+ PE + W Y +
Sbjct: 353 HDLSSLRTILSTGSPLPPEGFDWVYSHV 380
>gnl|CDD|213317 cd05970, MACS_AAE_MA_like, Medium-chain acyl-CoA synthetase (MACS)
of AAE_MA like. 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. This family of MACS
enzymes is found in archaea and bacteria. It is
represented by the acyl-adenylating enzyme from
Methanosarcina acetivorans (AAE_MA). AAE_MA is most
active with propionate, butyrate, and the branched
analogs: 2-methyl-propionate, butyrate, and pentanoate.
The specific activity is weaker for smaller or larger
acids.
Length = 537
Score = 32.8 bits (75), Expect = 0.004
Identities = 18/45 (40%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 7 KHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTET 51
K+DL+SLR + GEP+NPE + + G +++ F QTET
Sbjct: 297 KYDLSSLRYCTTAGEPLNPEVFNTFKEKTG---IKLMEGFGQTET 338
>gnl|CDD|233316 TIGR01217, ac_ac_CoA_syn, acetoacetyl-CoA synthase. This enzyme
catalyzes the first step of the mevalonate pathway of
IPP biosynthesis. Most bacteria do not use this pathway,
but rather the deoxyxylulose pathway [Central
intermediary metabolism, Other].
Length = 652
Score = 31.8 bits (72), Expect = 0.010
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 8 HDLNSLRVLGSVGEPINPEAWQWYYHSI 35
HDL++L+ + S G P+ P+ ++W Y I
Sbjct: 381 HDLSALQCVASTGSPLPPDGFRWVYDEI 408
>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 = 30.0 bits (68), Expect = 0.041
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 7/53 (13%)
Query: 1 MLSYPQK--HDLNSLRVLGSVGEPINPEAW-QWYYHSIGGGKCSIVDTFWQTE 50
ML+ P+K DL+SLR+ S GE + E +W I+D TE
Sbjct: 266 MLAAPEKPERDLSSLRLCVSAGEALPAEIGYRWKELF----GLEILDGIGSTE 314
>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 = 29.3 bits (66), Expect = 0.069
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 12 SLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTET 51
LR S GEP+NPE + + G +I D + QTET
Sbjct: 200 RLREAVSAGEPLNPEVIERVKKAWG---LTIRDGYGQTET 236
>gnl|CDD|213311 cd05958, ABCL, 2-aminobenzoate-CoA ligase (ABCL). ABCL catalyzes
the initial step in the 2-aminobenzoate aerobic
degradation pathway by activating 2-aminobenzoate to
2-aminobenzoyl-CoA. The reaction is carried out via a
two-step process; the first step is ATP-dependent and
forms a 2-aminobenzoyl-AMP intermediate, and the second
step forms the 2-aminobenzoyl-CoA ester and releases the
AMP. 2-Aminobenzoyl-CoA is further converted to
2-amino-5-oxo-cyclohex-1-ene-1-carbonyl-CoA catalyzed by
2-aminobenzoyl-CoA monooxygenase/reductase. ABCL has
been purified from cells aerobically grown with
2-aminobenzoate as sole carbon, energy, and nitrogen
source, and has been characterized as a monomer.
Length = 487
Score = 29.0 bits (65), Expect = 0.100
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 3/50 (6%)
Query: 1 MLSYPQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTE 50
ML + D++SLR S GE + + WQ +Y G I+D TE
Sbjct: 251 MLIKVKAFDISSLRKCVSAGETLPAKVWQDWYERTG---LKIIDGIGATE 297
>gnl|CDD|213297 cd05931, FAAL, Fatty acyl-AMP ligase (FAAL). FAAL belongs to the
class I adenylate forming enzyme family and is
homologous to fatty acyl-coenzyme A (CoA) ligases
(FACLs). However, FAALs produce only the acyl adenylate
and are unable to perform the thioester-forming
reaction, while FACLs perform a two-step catalytic
reaction; AMP ligation followed by CoA ligation using
ATP and CoA as cofactors. FAALs have insertion motifs
between the N-terminal and C-terminal subdomains that
distinguish them from the FACLs. This insertion motif
precludes the binding of CoA, thus preventing CoA
ligation. It has been suggested that the acyl adenylates
serve as substrates for multifunctional polyketide
synthases to permit synthesis of complex lipids such as
phthiocerol dimycocerosate, sulfolipids, mycolic acids,
and mycobactin.
Length = 547
Score = 27.9 bits (63), Expect = 0.18
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 9 DLNSLRVLGSVGEPINPE 26
DL+S RV + EP+ +
Sbjct: 268 DLSSWRVAFNGAEPVRAD 285
>gnl|CDD|240325 PTZ00237, PTZ00237, acetyl-CoA synthetase; Provisional.
Length = 647
Score = 27.8 bits (62), Expect = 0.26
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 7 KHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETG 52
K+DL++L+ + GE I E+ Y + K S + QTE G
Sbjct: 376 KYDLSNLKEIWCGGEVIE-ESIPEYIENKLKIKSSRG--YGQTEIG 418
>gnl|CDD|213291 cd05924, FACL_like_5, Uncharacterized subfamily of fatty acid CoA
ligase (FACL). Fatty acyl-CoA ligases catalyze the
ATP-dependent activation of fatty acids in a two-step
reaction. The carboxylate substrate first reacts with
ATP to form an acyl-adenylate intermediate, which then
reacts with CoA to produce an acyl-CoA ester. This is a
required step before free fatty acids can participate in
most catabolic and anabolic reactions.
Length = 365
Score = 26.5 bits (59), Expect = 0.63
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 8/50 (16%)
Query: 7 KHDLNSLRVLGSVGEPINPE---AWQWYYHSIGGGKCSIVDTFWQTETGG 53
++DL+SLR + S G +PE ++ ++VD +ETGG
Sbjct: 131 RYDLSSLRAISSSGAMWSPEVKQGLLELLPNL-----ALVDALGASETGG 175
>gnl|CDD|213294 cd05928, MACS_euk, Eukaryotic Medium-chain acyl-CoA synthetase
(MACS or ACSM). 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. The acyl-CoA is a key
intermediate in many important biosynthetic and
catabolic processes. MACS enzymes are localized to
mitochondria. Two murine MACS family proteins are found
in liver and kidney. In rodents, a MACS member is
detected particularly in the olfactory epithelium and is
called O-MACS. O-MACS demonstrates substrate preference
for the fatty acid lengths of C6-C12.
Length = 530
Score = 26.3 bits (58), Expect = 0.71
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 12 SLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETG 52
SLR + GEP+NPE + + G + + + QTETG
Sbjct: 292 SLRHCVTGGEPLNPEVLEQWKAQTG---LDLYEGYGQTETG 329
>gnl|CDD|223395 COG0318, CaiC, Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases
II [Lipid metabolism / Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 534
Score = 25.9 bits (57), Expect = 1.1
Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 5/60 (8%)
Query: 1 MLSYPQKHDLN---SLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLT 57
+L P+K D + SLR++ S G P+ PE + + G +I++ + TET V
Sbjct: 278 LLDNPEKDDDDLSSSLRLVLSGGAPLPPELLERFEER--FGPIAILEGYGLTETSPVVTI 335
>gnl|CDD|213295 cd05929, BACL_like, Bacterial Bile acid CoA ligases and similar
proteins. Bile acid-Coenzyme A ligase catalyzes the
formation of bile acid-CoA conjugates in a two-step
reaction: the formation of a bile acid-AMP molecule as
an intermediate, followed by the formation of a bile
acid-CoA. This ligase requires a bile acid with a free
carboxyl group, ATP, Mg2+, and CoA for synthesis of the
final bile acid-CoA conjugate. The bile acid-CoA
ligation is believed to be the initial step in the bile
acid 7alpha-dehydroxylation pathway in the intestinal
bacterium Eubacterium sp.
Length = 342
Score = 25.5 bits (57), Expect = 1.6
Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 5/55 (9%)
Query: 1 MLSYP--QKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGG 53
+L P ++DL+SLR++ P+ E + I V + TETG
Sbjct: 103 LLRLPDFARYDLSSLRLIIYGAAPMPAELKRAM---IEWFGPVFVQGYGMTETGP 154
>gnl|CDD|215552 PLN03051, PLN03051, acyl-activating enzyme; Provisional.
Length = 499
Score = 25.5 bits (56), Expect = 1.7
Identities = 8/23 (34%), Positives = 10/23 (43%)
Query: 8 HDLNSLRVLGSVGEPINPEAWQW 30
D + LRV S GE + W
Sbjct: 233 LDWSKLRVFASTGEASAVDDVLW 255
>gnl|CDD|233659 TIGR01967, DEAH_box_HrpA, ATP-dependent helicase HrpA. This model
represents HrpA, one of two related but uncharacterized
DEAH-box ATP-dependent helicases in many Proteobacteria
and a few high-GC Gram-positive bacteria. HrpA is about
1300 amino acids long, while its paralog HrpB, also
uncharacterized, is about 800 amino acids long. Related
characterized eukarotic proteins are RNA helicases
associated with pre-mRNA processing [Unknown function,
Enzymes of unknown specificity].
Length = 1283
Score = 25.5 bits (56), Expect = 1.9
Identities = 7/12 (58%), Positives = 8/12 (66%)
Query: 19 VGEPINPEAWQW 30
GE +NPE W W
Sbjct: 937 TGERVNPEDWDW 948
>gnl|CDD|236091 PRK07768, PRK07768, long-chain-fatty-acid--CoA ligase; Validated.
Length = 545
Score = 25.3 bits (56), Expect = 1.9
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 9 DLNSLRVLGSVGEPINPEA 27
DL+SLR + EPI+P
Sbjct: 274 DLSSLRFALNGAEPIDPAD 292
>gnl|CDD|178005 PLN02379, PLN02379, pfkB-type carbohydrate kinase family protein.
Length = 367
Score = 25.1 bits (55), Expect = 2.0
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 15 VLGSVGEPINPEAWQWYY 32
V+ ++G + PE WQW Y
Sbjct: 335 VVRALGGEVTPENWQWMY 352
>gnl|CDD|219952 pfam08645, PNK3P, Polynucleotide kinase 3 phosphatase.
Polynucleotide kinase 3 phosphatases play a role in the
repair of single breaks in DNA induced by DNA-damaging
agents such as gamma radiation and camptothecin.
Length = 158
Score = 25.3 bits (56), Expect = 2.0
Identities = 5/14 (35%), Positives = 9/14 (64%)
Query: 22 PINPEAWQWYYHSI 35
P + + W+W Y S+
Sbjct: 21 PKDADDWKWLYPSV 34
>gnl|CDD|213296 cd05930, A_NRPS, The adenylation domain of nonribosomal peptide
synthetases (NRPS). The adenylation (A) domain of NRPS
recognizes a specific amino acid or hydroxy acid and
activates it as an (amino) acyl adenylate by hydrolysis
of ATP. The activated acyl moiety then forms a thioester
bond to the enzyme-bound cofactor phosphopantetheine of
a peptidyl carrier protein domain. NRPSs are large
multifunctional enzymes which synthesize many
therapeutically useful peptides in bacteria and fungi
via a template-directed, nucleic acid independent
nonribosomal mechanism. These natural products include
antibiotics, immunosuppressants, plant and animal
toxins, and enzyme inhibitors. NRPS has a distinct
modular structure in which each module is responsible
for the recognition, activation, and in some cases,
modification of a single amino acid residue of the final
peptide product. The modules can be subdivided into
domains that catalyze specific biochemical reactions.
Length = 445
Score = 25.1 bits (56), Expect = 2.1
Identities = 8/29 (27%), Positives = 14/29 (48%)
Query: 1 MLSYPQKHDLNSLRVLGSVGEPINPEAWQ 29
+L + L SLR++ GE + E +
Sbjct: 198 LLDALEPAALPSLRLVIVGGEALPAELVR 226
>gnl|CDD|236097 PRK07788, PRK07788, acyl-CoA synthetase; Validated.
Length = 549
Score = 24.9 bits (55), Expect = 2.4
Identities = 7/21 (33%), Positives = 14/21 (66%)
Query: 6 QKHDLNSLRVLGSVGEPINPE 26
K+D +SL+++ G ++PE
Sbjct: 318 AKYDTSSLKIIFVSGSALSPE 338
>gnl|CDD|227289 COG4953, PbpC, Membrane carboxypeptidase/penicillin-binding protein
PbpC [Cell envelope biogenesis, outer membrane].
Length = 733
Score = 25.0 bits (55), Expect = 2.5
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 29 QWYYHSIGGGKCSIVDTFWQTETGGHV 55
+ +Y G +++ WQT T G V
Sbjct: 80 KRFYWHPGVDPLALLRAAWQTLTSGRV 106
>gnl|CDD|213287 cd05920, 23DHB-AMP_lg, 2,3-dihydroxybenzoate-AMP ligase.
2,3-dihydroxybenzoate-AMP ligase activates
2,3-dihydroxybenzoate (DHB) by ligation of AMP from ATP
with the release of pyrophosphate. However, it can also
catalyze the ATP-PPi exchange for 2,3-DHB analogs, such
as salicyclic acid (o-hydrobenzoate), as well as 2,4-DHB
and 2,5-DHB, but with less efficiency. Proteins in this
family are the stand-alone adenylation components of
non-ribosomal peptide synthases (NRPSs) involved in the
biosynthesis of siderophores, which are low molecular
weight iron-chelating compounds synthesized by many
bacteria to aid in the acquisition of this vital trace
elements. In Escherichia coli, the
2,3-dihydroxybenzoate-AMP ligase is called EntE, the
adenylation component of the enterobactin NRPS system.
Length = 483
Score = 24.5 bits (54), Expect = 3.6
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 6 QKHDLNSLRVLGSVGEPINPE 26
+ DL+SLRV+ G P++PE
Sbjct: 250 DQADLSSLRVIQVGGAPLSPE 270
>gnl|CDD|213285 cd05918, A_NRPS_SidN3_like, The adenylation (A) domain of
siderophore-synthesizing nonribosomal peptide
synthetases (NRPS). The adenylation (A) domain of NRPS
recognizes a specific amino acid or hydroxy acid and
activates it as an (amino) acyl adenylate by hydrolysis
of ATP. The activated acyl moiety then forms a thioester
to the enzyme-bound cofactor phosphopantetheine of a
peptidyl carrier protein domain. This family of
siderophore-synthesizing NRPS includes the third
adenylation domain of SidN from the endophytic fungus
Neotyphodium lolii, ferrichrome siderophore synthetase,
HC-toxin synthetase, and enniatin synthase. NRPSs are
large multifunctional enzymes which synthesize many
therapeutically useful peptides. These natural products
include antibiotics, immunosuppressants, plant and
animal toxins, and enzyme inhibitors. NRPS has a
distinct modular structure in which each module is
responsible for the recognition, activation, and in some
cases, modification of a single amino acid residue of
the final peptide product. The modules can be subdivided
into domains that catalyze specific biochemical
reactions.
Length = 447
Score = 24.1 bits (53), Expect = 4.3
Identities = 11/49 (22%), Positives = 17/49 (34%), Gaps = 11/49 (22%)
Query: 6 QKHDLNSLRVLGSVGEPINP---EAWQWYYHSIGGGKCSIVDTFWQTET 51
D+ SLR L GE + W +++T+ TE
Sbjct: 203 DPEDVPSLRTLILGGEACPQALVDRW--------SKPRRLLNTYGPTEA 243
>gnl|CDD|213284 cd05917, FACL_like_2, Uncharacterized subfamily of fatty acid CoA
ligase (FACL). Fatty acyl-CoA ligases catalyze the
ATP-dependent activation of fatty acids in a two-step
reaction. The carboxylate substrate first reacts with
ATP to form an acyl-adenylate intermediate, which then
reacts with CoA to produce an acyl-CoA ester. This is a
required step before free fatty acids can participate in
most catabolic and anabolic reactions.
Length = 347
Score = 24.0 bits (53), Expect = 5.7
Identities = 18/57 (31%), Positives = 24/57 (42%), Gaps = 4/57 (7%)
Query: 1 MLSYPQ--KHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHV 55
+L +P K DL+SLR S G P+ PE + I + TET G
Sbjct: 105 LLEHPDFDKFDLSSLRTGISGGAPVPPELVRRIREEF--PMAEITTGYGMTETSGVG 159
>gnl|CDD|217092 pfam02538, Hydantoinase_B, Hydantoinase B/oxoprolinase. This
family includes N-methylhydaintoinase B which converts
hydantoin to N-carbamyl-amino acids, and 5-oxoprolinase
EC:3.5.2.9 which catalyzes the formation of L-glutamate
from 5-oxo-L-proline. These enzymes are part of the
oxoprolinase family and are related to pfam01968.
Length = 527
Score = 24.0 bits (52), Expect = 5.7
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 3/30 (10%)
Query: 9 DLNSLRVLGSVGEPINPEAWQWYYHSIGGG 38
+N++ G G + EA+Q YY +IGGG
Sbjct: 360 TMNNVTFGG--GGNQDGEAFQ-YYETIGGG 386
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
0.318 0.137 0.469
Gapped
Lambda K H
0.267 0.0768 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,034,766
Number of extensions: 199628
Number of successful extensions: 239
Number of sequences better than 10.0: 1
Number of HSP's gapped: 230
Number of HSP's successfully gapped: 40
Length of query: 59
Length of database: 10,937,602
Length adjustment: 31
Effective length of query: 28
Effective length of database: 9,562,628
Effective search space: 267753584
Effective search space used: 267753584
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 (21.7 bits)
S2: 53 (24.1 bits)