RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4969
(66 letters)
>gnl|CDD|213279 cd05911, Firefly_Luc_like, Firefly luciferase of light emitting
insects and 4-Coumarate-CoA Ligase (4CL). This family
contains two functionally unique groups of proteins; one
group is insect firefly luciferases and the other is
plant 4-coumarate:coenzyme A ligases. However, they
share significant sequence similarity in spite of their
functional diversity. Luciferase catalyzes the
production of light in the presence of MgATP, molecular
oxygen, and luciferin. In the first step, luciferin is
activated by acylation of its carboxylate group with
ATP, resulting in an enzyme-bound luciferyl adenylate.
In the second step, luciferyl adenylate reacts with
molecular oxygen, producing an enzyme-bound excited
state product (Luc=O*) and releasing AMP. This
excited-state product then decays to the ground state
(Luc=O), emitting a quantum of visible light.
4-coumarate:coenzyme A ligase is a key enzyme in the
phenylpropanoid metabolic pathway for monolignol and
flavonoid biosynthesis. It catalyzes the synthesis of
hydroxycinnamate-CoA thioesters in a two-step reaction,
involving the formation of hydroxycinnamate-AMP
anhydride and then the nucleophilic substitution of AMP
by CoA. The phenylpropanoid pathway is one of the most
important secondary metabolism pathways in plants and
hydroxycinnamate-CoA thioesters are the precursors of
lignin and other important phenylpropanoids.
Length = 487
Score = 81.1 bits (201), Expect = 4e-20
Identities = 30/62 (48%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTH 63
I+D L + GELC+KG + GY N EATKE +D+DGWLHTGD+ Y DG
Sbjct: 329 IVDEDGGKSLGPNERGELCVKGPQIMKGYLNNPEATKETIDEDGWLHTGDIGYFDEDGNF 388
Query: 64 FI 65
+I
Sbjct: 389 YI 390
>gnl|CDD|213272 cd05904, 4CL, 4-Coumarate-CoA Ligase (4CL). 4-Coumarate:coenzyme A
ligase is a key enzyme in the phenylpropanoid metabolic
pathway for monolignol and flavonoid biosynthesis. It
catalyzes the synthesis of hydroxycinnamate-CoA
thioesters in a two-step reaction, involving the
formation of hydroxycinnamate-AMP anhydride and the
nucleophilic substitution of AMP by CoA. The
phenylpropanoid pathway is one of the most important
secondary metabolism pathways in plants and
hydroxycinnamate-CoA thioesters are the precursors of
lignin and other important phenylpropanoids.
Length = 504
Score = 78.4 bits (194), Expect = 4e-19
Identities = 33/62 (53%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTH 63
I+DP T LP + GEL ++G V GY N EAT E +D DGWLHTGDL Y DG
Sbjct: 343 IVDPETGESLPPNQPGELWVRGPQVMKGYLNNPEATAETIDKDGWLHTGDLGYFDEDGYL 402
Query: 64 FI 65
FI
Sbjct: 403 FI 404
>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 = 72.6 bits (179), Expect = 4e-17
Identities = 31/62 (50%), Positives = 39/62 (62%), Gaps = 2/62 (3%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTH 63
I+DP ++P G+ GE+C++G V GY N EAT E +D DGWLHTGDL Y DG
Sbjct: 186 IVDPDGG-EVPPGEVGEICVRGYSVMKGYYNDPEATAEAIDADGWLHTGDLGYMDEDGYL 244
Query: 64 FI 65
I
Sbjct: 245 RI 246
>gnl|CDD|236236 PRK08315, PRK08315, AMP-binding domain protein; Validated.
Length = 559
Score = 72.5 bits (179), Expect = 4e-17
Identities = 28/52 (53%), Positives = 34/52 (65%), Gaps = 1/52 (1%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLA 55
I+DP T +P G+ GELC +G V GY N E T E +D DGW+HTGDLA
Sbjct: 384 IVDPETGETVPRGEQGELCTRGYSVMKGYWNDPEKTAEAIDADGWMHTGDLA 435
>gnl|CDD|215137 PLN02246, PLN02246, 4-coumarate--CoA ligase.
Length = 537
Score = 70.0 bits (172), Expect = 4e-16
Identities = 29/62 (46%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTH 63
I+DP T LP + GE+C++G + GY N EAT +D DGWLHTGD+ Y D
Sbjct: 369 IVDPETGASLPRNQPGEICIRGPQIMKGYLNDPEATANTIDKDGWLHTGDIGYIDDDDEL 428
Query: 64 FI 65
FI
Sbjct: 429 FI 430
>gnl|CDD|213302 cd05936, FC-FACS_FadD_like, Prokaryotic long-chain fatty acid CoA
synthetases similar to Escherichia coli FadD. This
subfamily of the AMP-forming adenylation family contains
Escherichia coli FadD and similar prokaryotic fatty acid
CoA synthetases. FadD was characterized as a long-chain
fatty acid CoA synthetase. The gene fadD is regulated by
the fatty acid regulatory protein FadR. Fatty acid CoA
synthetase catalyzes the formation of fatty acyl-CoA in
a two-step reaction: the formation of a fatty acyl-AMP
molecule as an intermediate, followed by the formation
of a fatty acyl-CoA. This is a required step before free
fatty acids can participate in most catabolic and
anabolic reactions.
Length = 468
Score = 69.9 bits (172), Expect = 4e-16
Identities = 28/62 (45%), Positives = 37/62 (59%), Gaps = 3/62 (4%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTH 63
I+D + LP G+ GEL ++G V GY N+ E T E+L D GWL TGD+ Y DG
Sbjct: 308 IVDDEGNE-LPPGEVGELVVRGPQVMKGYWNRPEETAEVLTD-GWLRTGDIGYMDEDGYF 365
Query: 64 FI 65
+I
Sbjct: 366 YI 367
>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 = 69.8 bits (171), Expect = 4e-16
Identities = 30/62 (48%), Positives = 38/62 (61%), Gaps = 2/62 (3%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTH 63
I+DP LP G+ GE+ ++G V GY N+ EAT E D+DGWL TGDL Y DG
Sbjct: 359 IVDPDGGEVLP-GEVGEIWVRGPNVMKGYWNRPEATAEAFDEDGWLRTGDLGYVDEDGYL 417
Query: 64 FI 65
+I
Sbjct: 418 YI 419
>gnl|CDD|213307 cd05941, MCS, Malonyl-CoA synthetase (MCS). MCS catalyzes the
formation of malonyl-CoA in a two-step reaction
consisting of the adenylation of malonate with ATP,
followed by malonyl transfer from malonyl-AMP to CoA.
Malonic acid and its derivatives are the building blocks
of polyketides and malonyl-CoA serves as the substrate
of polyketide synthases. Malonyl-CoA synthetase has
broad substrate tolerance and can activate a variety of
malonyl acid derivatives. MCS may play an important role
in biosynthesis of polyketides, the important secondary
metabolites with therapeutic and agrochemical utility.
Length = 430
Score = 65.7 bits (161), Expect = 1e-14
Identities = 25/62 (40%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTH 63
I+D L G+ GE+ ++G VF Y NK EAT E +DGW TGD+ DG +
Sbjct: 271 IVDEDGGEPLAAGEVGEIQVRGPNVFSEYWNKPEATAEAFTEDGWFKTGDVGVVDEDGYY 330
Query: 64 FI 65
I
Sbjct: 331 RI 332
>gnl|CDD|215954 pfam00501, AMP-binding, AMP-binding enzyme.
Length = 412
Score = 65.1 bits (159), Expect = 2e-14
Identities = 25/64 (39%), Positives = 32/64 (50%), Gaps = 4/64 (6%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWL--HTGDLAYRLPDG 61
++D +P G+ GELC++G V GY N E T E +DGW TGDL DG
Sbjct: 315 VLDEEG-EPVPPGEVGELCIRGPGVARGYLNDPELTAERFVEDGWGMYRTGDLGRWDEDG 373
Query: 62 THFI 65
I
Sbjct: 374 YLEI 377
>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 = 64.9 bits (159), Expect = 2e-14
Identities = 24/55 (43%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 8 PVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
P+ V++ + GE+ ++G V GY EAT E LD+DGWLHTGD+ DG
Sbjct: 271 PLPGVEVRIAEDGEILVRGPNVMKGYYKNPEATAEALDEDGWLHTGDIGRLDEDG 325
>gnl|CDD|168170 PRK05677, PRK05677, long-chain-fatty-acid--CoA ligase; Validated.
Length = 562
Score = 64.8 bits (158), Expect = 3e-14
Identities = 30/58 (51%), Positives = 37/58 (63%), Gaps = 2/58 (3%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
+ID +LP G+ GELC+KG V GY + EAT E+LD DGWL TGD+A DG
Sbjct: 391 VIDDD-GNELPLGEVGELCVKGPQVMKGYWQRPEATDEILDSDGWLKTGDIALIQEDG 447
>gnl|CDD|213301 cd05935, LC_FACS_like, Putative long-chain fatty acid CoA ligase.
The members of this family are putative long-chain fatty
acyl-CoA synthetases, which 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. Fatty acyl-CoA synthetases
are responsible for fatty acid degradation as well as
physiological regulation of cellular functions via the
production of fatty acyl-CoA esters.
Length = 430
Score = 63.9 bits (156), Expect = 5e-14
Identities = 28/65 (43%), Positives = 37/65 (56%), Gaps = 4/65 (6%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKE---MLDDDGWLHTGDLAYRLPD 60
+IDP T +LP G+ GE+ ++G VF GY N+ EAT E LD + TGDL Y +
Sbjct: 264 VIDPETGEELPPGEEGEIVVRGPQVFKGYWNRPEATAESFIELDGKRFFRTGDLGYIDEE 323
Query: 61 GTHFI 65
G F
Sbjct: 324 GYFFF 328
>gnl|CDD|215189 PLN02330, PLN02330, 4-coumarate--CoA ligase-like 1.
Length = 546
Score = 63.1 bits (153), Expect = 1e-13
Identities = 30/61 (49%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 6 IDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHF 64
IDP T LP GELC++ V GY N E T +D+DGWLHTGD+ Y DG F
Sbjct: 375 IDPDTGRSLPKNTPGELCVRSQCVMQGYYNNKEETDRTIDEDGWLHTGDIGYIDDDGDIF 434
Query: 65 I 65
I
Sbjct: 435 I 435
>gnl|CDD|223953 COG1022, FAA1, Long-chain acyl-CoA synthetases (AMP-forming) [Lipid
metabolism].
Length = 613
Score = 62.3 bits (152), Expect = 2e-13
Identities = 23/59 (38%), Positives = 29/59 (49%), Gaps = 3/59 (5%)
Query: 8 PVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFI 65
P V++ D GE+ ++G V GY EAT E +DGW TGDL DG I
Sbjct: 411 PGIEVKIAD--DGEILVRGPNVMKGYYKNPEATAEAFTEDGWFRTGDLGELDEDGYLVI 467
>gnl|CDD|237145 PRK12583, PRK12583, acyl-CoA synthetase; Provisional.
Length = 558
Score = 62.5 bits (152), Expect = 2e-13
Identities = 27/52 (51%), Positives = 36/52 (69%), Gaps = 2/52 (3%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLA 55
++DP + +P G+ GELC +G V GY N EAT E +D+DGW+HTGDLA
Sbjct: 386 VVDPDGAT-VPRGEIGELCTRGYSVMKGYWNNPEATAESIDEDGWMHTGDLA 436
>gnl|CDD|171539 PRK12492, PRK12492, long-chain-fatty-acid--CoA ligase; Provisional.
Length = 562
Score = 61.0 bits (148), Expect = 5e-13
Identities = 27/51 (52%), Positives = 33/51 (64%), Gaps = 1/51 (1%)
Query: 12 VQLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
+LP G+ GELC+KG V GY + EAT E LD +GW TGD+A PDG
Sbjct: 405 NELPLGERGELCIKGPQVMKGYWQQPEATAEALDAEGWFKTGDIAVIDPDG 455
>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 = 60.3 bits (147), Expect = 9e-13
Identities = 24/44 (54%), Positives = 30/44 (68%), Gaps = 1/44 (2%)
Query: 20 GELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGT 62
GE+C++G +VF GY E T E D+DGW HTGD+ LPDGT
Sbjct: 351 GEICIRGPNVFKGYYKNPEKTAEAFDEDGWFHTGDIGEWLPDGT 394
>gnl|CDD|236072 PRK07656, PRK07656, long-chain-fatty-acid--CoA ligase; Validated.
Length = 513
Score = 60.3 bits (147), Expect = 1e-12
Identities = 23/49 (46%), Positives = 31/49 (63%), Gaps = 1/49 (2%)
Query: 14 LPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
+P G+ GEL ++G +V GY + EAT +D DGWLHTGDL +G
Sbjct: 358 VPVGEVGELLVRGPNVMKGYYDDPEATAAAIDADGWLHTGDLGRLDEEG 406
>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 = 59.2 bits (144), Expect = 2e-12
Identities = 21/59 (35%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 8 PVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFI 65
P+ V+L + GE+ ++ + GY E T E +DGWLHTGD DG I
Sbjct: 331 PIPGVELKISEDGEILIRSPGLMSGYYKDPEKTAEAFTEDGWLHTGDKGEIDEDGFLKI 389
>gnl|CDD|235722 PRK06164, PRK06164, acyl-CoA synthetase; Validated.
Length = 540
Score = 59.4 bits (144), Expect = 2e-12
Identities = 23/59 (38%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGT 62
DP LPDG++GE+ ++ + GY + +AT L DDG+ TGDL Y DG
Sbjct: 363 ARDPQDGALLPDGESGEIEIRAPSLMRGYLDNPDATARALTDDGYFRTGDLGYTRGDGQ 421
>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 = 59.0 bits (144), Expect = 3e-12
Identities = 27/49 (55%), Positives = 32/49 (65%), Gaps = 2/49 (4%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
LP G+ GE+ ++G V GY N+ EAT E L D GWLHTGDL Y DG
Sbjct: 190 LPPGEVGEIVVRGPAVMAGYWNRPEATAEALRD-GWLHTGDLGYLDEDG 237
>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 = 58.9 bits (143), Expect = 3e-12
Identities = 24/47 (51%), Positives = 33/47 (70%), Gaps = 1/47 (2%)
Query: 20 GELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFI 65
GE+C+ G VF+GY N E T+E +D+DGWLH+GDL + DG +I
Sbjct: 391 GEICIWGRHVFMGYLNMEEKTEEAIDEDGWLHSGDLGFLDDDGFLYI 437
>gnl|CDD|181195 PRK08008, caiC, putative crotonobetaine/carnitine-CoA ligase;
Validated.
Length = 517
Score = 58.5 bits (142), Expect = 4e-12
Identities = 23/53 (43%), Positives = 32/53 (60%), Gaps = 4/53 (7%)
Query: 13 QLPDGKTGELCLKG----DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
LP G+ GE+C+KG +F Y +AT ++L+ DGWLHTGD Y +G
Sbjct: 360 PLPAGEIGEICIKGVPGKTIFKEYYLDPKATAKVLEADGWLHTGDTGYVDEEG 412
>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 = 58.0 bits (141), Expect = 6e-12
Identities = 29/68 (42%), Positives = 39/68 (57%), Gaps = 8/68 (11%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEM------LDDDGWLHTGDLAYR 57
I+DP T LPDG+ GE+ ++G V GY N+ EAT E D+ GWL TGDL +
Sbjct: 368 IVDPETRRPLPDGEVGEIWVRGPSVAAGYWNRPEATAETFGARLATDEGGWLRTGDLGFL 427
Query: 58 LPDGTHFI 65
DG ++
Sbjct: 428 H-DGELYV 434
>gnl|CDD|235730 PRK06187, PRK06187, long-chain-fatty-acid--CoA ligase; Validated.
Length = 521
Score = 57.5 bits (140), Expect = 9e-12
Identities = 27/63 (42%), Positives = 36/63 (57%), Gaps = 3/63 (4%)
Query: 5 IIDPVTSVQLPDGKT-GELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGT 62
I+D PDG GE+ ++G + GY N+ EAT E +D GWLHTGD+ Y DG
Sbjct: 352 IVDDDGDELPPDGGEVGEIIVRGPWLMQGYWNRPEATAETIDG-GWLHTGDVGYIDEDGY 410
Query: 63 HFI 65
+I
Sbjct: 411 LYI 413
>gnl|CDD|213300 cd05934, FACL_DitJ_like, 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. Members of this
family include DitJ from Pseudomonas and similar
proteins.
Length = 421
Score = 57.2 bits (139), Expect = 1e-11
Identities = 20/52 (38%), Positives = 26/52 (50%), Gaps = 5/52 (9%)
Query: 14 LPDGKTGELCLKGDV----FLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
+P G+ GEL ++ F GY EAT + + GW HTGD R DG
Sbjct: 266 VPPGEVGELVVRPRRPWAMFKGYYGMPEATAKAWRN-GWFHTGDRGRRDEDG 316
>gnl|CDD|215312 PLN02574, PLN02574, 4-coumarate--CoA ligase-like.
Length = 560
Score = 57.2 bits (138), Expect = 1e-11
Identities = 29/66 (43%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 1 MSRTIIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLP 59
M ++D T LP G GEL ++G V GY N +AT+ +D DGWL TGD+AY
Sbjct: 383 MQAKVVDWSTGCLLPPGNCGELWIQGPGVMKGYLNNPKATQSTIDKDGWLRTGDIAYFDE 442
Query: 60 DGTHFI 65
DG +I
Sbjct: 443 DGYLYI 448
>gnl|CDD|240316 PTZ00216, PTZ00216, acyl-CoA synthetase; Provisional.
Length = 700
Score = 57.3 bits (139), Expect = 1e-11
Identities = 21/44 (47%), Positives = 30/44 (68%), Gaps = 1/44 (2%)
Query: 20 GELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGT 62
GE+ L+G +F GY + E T+E+LD+DGW HTGD+ +GT
Sbjct: 508 GEILLRGPFLFKGYYKQEELTREVLDEDGWFHTGDVGSIAANGT 551
>gnl|CDD|213292 cd05926, FACL_fum10p_like, Subfamily of fatty acid CoA ligase
(FACL) similar to Fum10p of Gibberella moniliformis.
FACL catalyzes the formation of fatty acyl-CoA in a
two-step reaction: the formation of a fatty acyl-AMP
molecule as an intermediate, followed by the formation
of a fatty acyl-CoA. This is a required step before free
fatty acids can participate in most catabolic and
anabolic reactions. Fum10p is a fatty acid CoA ligase
involved in the synthesis of fumonisin, a polyketide
mycotoxin, in Gibberella moniliformis.
Length = 345
Score = 56.1 bits (136), Expect = 2e-11
Identities = 26/63 (41%), Positives = 33/63 (52%), Gaps = 3/63 (4%)
Query: 4 TIIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGT 62
I+D LP G+ GE+ ++G V GY N EA +E D GW TGDL Y DG
Sbjct: 183 AILDDDGRP-LPPGQEGEIVIRGPNVTAGYLNNPEANREAFRD-GWFRTGDLGYLDEDGY 240
Query: 63 HFI 65
F+
Sbjct: 241 LFL 243
>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 = 56.1 bits (136), Expect = 3e-11
Identities = 23/62 (37%), Positives = 31/62 (50%), Gaps = 2/62 (3%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTH 63
++D LP G+ GEL ++G V GY N T +DGW TGDL Y +G
Sbjct: 182 VVDEEGKP-LPPGEVGELVVRGPWVMKGYWNNPPETTAAATEDGWYRTGDLGYLDEEGYL 240
Query: 64 FI 65
+I
Sbjct: 241 YI 242
>gnl|CDD|236359 PRK08974, PRK08974, long-chain-fatty-acid--CoA ligase; Validated.
Length = 560
Score = 55.8 bits (135), Expect = 4e-11
Identities = 25/53 (47%), Positives = 33/53 (62%), Gaps = 2/53 (3%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFI 65
+P G+ GEL +KG V LGY + EAT E++ D GWL TGD+A +G I
Sbjct: 399 VPPGEPGELWVKGPQVMLGYWQRPEATDEVIKD-GWLATGDIAVMDEEGFLRI 450
>gnl|CDD|213326 cd12118, ttLC_FACS_AEE21_like, Fatty acyl-CoA synthetases similar
to LC-FACS from Thermus thermophiles and Arabidopsis.
This family includes fatty acyl-CoA synthetases that can
activate medium to long-chain fatty acids. These enzymes
catalyze the ATP-dependent acylation 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.
Fatty acyl-CoA synthetases are responsible for fatty
acid degradation as well as physiological regulation of
cellular functions via the production of fatty acyl-CoA
esters. The fatty acyl-CoA synthetase from Thermus
thermophiles in this family has been shown to catalyze
the long-chain fatty acid, myristoyl acid. Also included
in this family are acyl activating enzymes from
Arabidopsis, which contains a large number of proteins
from this family with up to 63 different genes, many of
which are uncharacterized.
Length = 520
Score = 55.7 bits (135), Expect = 4e-11
Identities = 28/61 (45%), Positives = 37/61 (60%), Gaps = 4/61 (6%)
Query: 4 TIIDPVTSVQLP-DGKT-GELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPD 60
++DP T +P DGKT GE+ ++G+ V GY EAT+E GW H+GDLA PD
Sbjct: 356 DVVDPETMKDVPRDGKTIGEIVMRGNTVMKGYYKNPEATEEAFAG-GWFHSGDLAVVHPD 414
Query: 61 G 61
G
Sbjct: 415 G 415
>gnl|CDD|178337 PLN02736, PLN02736, long-chain acyl-CoA synthetase.
Length = 651
Score = 55.5 bits (134), Expect = 5e-11
Identities = 21/43 (48%), Positives = 30/43 (69%), Gaps = 1/43 (2%)
Query: 20 GELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
GE+C++G +F GY T+E++D+DGWLHTGD+ LP G
Sbjct: 459 GEICVRGPIIFKGYYKDEVQTREVIDEDGWLHTGDIGLWLPGG 501
>gnl|CDD|181546 PRK08751, PRK08751, putative long-chain fatty acyl CoA ligase;
Provisional.
Length = 560
Score = 54.5 bits (131), Expect = 1e-10
Identities = 23/43 (53%), Positives = 30/43 (69%), Gaps = 1/43 (2%)
Query: 14 LPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLA 55
L G+ GELC+KG V GY + E T +++D DGWLHTGD+A
Sbjct: 403 LAIGEIGELCIKGPQVMKGYWKRPEETAKVMDADGWLHTGDIA 445
>gnl|CDD|236235 PRK08314, PRK08314, long-chain-fatty-acid--CoA ligase; Validated.
Length = 546
Score = 54.2 bits (131), Expect = 1e-10
Identities = 27/65 (41%), Positives = 36/65 (55%), Gaps = 4/65 (6%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEM---LDDDGWLHTGDLAYRLPD 60
+IDP T +LP G+ GE+ + G VF GY N+ EAT E +D + TGDL +
Sbjct: 370 VIDPETLEELPPGEVGEIVVHGPQVFKGYWNRPEATAEAFIEIDGKRFFRTGDLGRMDEE 429
Query: 61 GTHFI 65
G FI
Sbjct: 430 GYFFI 434
>gnl|CDD|236096 PRK07787, PRK07787, acyl-CoA synthetase; Validated.
Length = 471
Score = 53.8 bits (130), Expect = 2e-10
Identities = 25/52 (48%), Positives = 32/52 (61%), Gaps = 2/52 (3%)
Query: 16 DGKT-GELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFI 65
DG+T GEL ++G +F GY N+ +AT DGW TGD+A PDG H I
Sbjct: 317 DGETVGELQVRGPTLFDGYLNRPDATAAAFTADGWFRTGDVAVVDPDGMHRI 368
>gnl|CDD|181644 PRK09088, PRK09088, acyl-CoA synthetase; Validated.
Length = 488
Score = 53.3 bits (128), Expect = 3e-10
Identities = 21/52 (40%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 15 PDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFI 65
P G GEL L+G + GY + +AT DGW TGD+A R DG ++
Sbjct: 328 PAGVPGELLLRGPNLSPGYWRRPQATARAFTGDGWFRTGDIARRDADGFFWV 379
>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 = 53.0 bits (128), Expect = 4e-10
Identities = 20/58 (34%), Positives = 25/58 (43%), Gaps = 2/58 (3%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
I+D +P G+ GEL +G GY E DDG+ TGDL DG
Sbjct: 322 IVDDQGEP-VPPGEVGELLTRGPYTIRGYYRAPEHNARAFTDDGFYRTGDLVRIDADG 378
>gnl|CDD|213271 cd05903, CHC_CoA_lg, Cyclohexanecarboxylate-CoA ligase (also called
cyclohex-1-ene-1-carboxylate:CoA ligase).
Cyclohexanecarboxylate-CoA ligase activates the
aliphatic ring compound, cyclohexanecarboxylate, for
degradation. It catalyzes the synthesis of
cyclohexanecarboxylate-CoA thioesters in a two-step
reaction involving the formation of
cyclohexanecarboxylate-AMP anhydride, followed by the
nucleophilic substitution of AMP by CoA.
Length = 437
Score = 52.6 bits (127), Expect = 5e-10
Identities = 24/58 (41%), Positives = 32/58 (55%), Gaps = 3/58 (5%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
I+D +P G+ GEL ++G +FLGY + + T E DDGW TGDL DG
Sbjct: 275 IVDD-DGNDVPPGEEGELQVRGPQLFLGYLDPPDNT-EAFTDDGWFRTGDLGRLDADG 330
>gnl|CDD|213277 cd05909, AAS_C, C-terminal domain of the acyl-acyl carrier protein
synthetase (also called 2-acylglycerophosphoethanolamine
acyltransferase, Aas). Acyl-acyl carrier protein
synthase (Aas) is a membrane protein responsible for a
minor pathway of incorporating exogenous fatty acids
into membrane phospholipids. Its in vitro activity is
characterized by the ligation of free fatty acids
between 8 and 18 carbons in length to the acyl carrier
protein sulfydryl group (ACP-SH) in the presence of ATP
and Mg2+. However, its in vivo function is as a
2-acylglycerophosphoethanolamine (2-acyl-GPE)
acyltransferase. The reaction occurs in two steps: the
acyl chain is first esterified to acyl carrier protein
(ACP) via a thioester bond, followed by a second step
where the acyl chain is transferred to a
2-acyllysophospholipid, thus completing the
transacylation reaction. This model represents the
C-terminal domain of the enzyme, which belongs to the
class I adenylate-forming enzyme family, including
acyl-CoA synthetases.
Length = 489
Score = 50.7 bits (122), Expect = 2e-09
Identities = 25/64 (39%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEM-LDDDGWLHTGDLAYRLPDGT 62
I+ P T +LP G+ G L ++G +V GY N E T E+ + DGW TGD+ DG
Sbjct: 324 IVSPETHEELPIGEGGLLLVRGPNVMSGYLNNEEKTSEVEVLGDGWYDTGDIGKIDEDG- 382
Query: 63 HFIW 66
F+
Sbjct: 383 -FLT 385
>gnl|CDD|235731 PRK06188, PRK06188, acyl-CoA synthetase; Validated.
Length = 524
Score = 50.8 bits (122), Expect = 2e-09
Identities = 24/52 (46%), Positives = 32/52 (61%), Gaps = 2/52 (3%)
Query: 15 PDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFI 65
G+ GE+C++G V GY N+ E T E D GWLHTGD+A DG ++I
Sbjct: 361 AQGEVGEICVRGPLVMDGYWNRPEETAEAFRD-GWLHTGDVAREDEDGFYYI 411
>gnl|CDD|213274 cd05906, A_NRPS_TubE_like, The adenylation domain (A domain) of a
family of nonribosomal peptide synthetases (NRPSs)
synthesizing toxins and antitumor agents. 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 includes NRPSs that
synthesize toxins and antitumor agents; for example,
TubE for Tubulysine, CrpA for cryptophycin, TdiA for
terrequinone A, KtzG for kutzneride, and Vlm1/Vlm2 for
Valinomycin. Nonribosomal peptide synthetases are large
multifunctional enzymes which synthesize many
therapeutically useful peptides. 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 = 560
Score = 50.0 bits (120), Expect = 5e-09
Identities = 19/44 (43%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAY 56
LP+G+ G L ++G V GY EA E +DGW TGDL +
Sbjct: 395 LPEGEVGRLQVRGPTVTSGYYRNPEANAEAFTEDGWFRTGDLGF 438
>gnl|CDD|235724 PRK06178, PRK06178, acyl-CoA synthetase; Validated.
Length = 567
Score = 49.7 bits (119), Expect = 5e-09
Identities = 28/63 (44%), Positives = 34/63 (53%), Gaps = 3/63 (4%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGDVFL-GYRNKVEATKEMLDDDGWLHTGDLAYRLPDG-T 62
I D T LP G GE+ ++ L GY NK EAT E L D GWLHTGD+ G
Sbjct: 400 ICDFETGELLPLGAEGEIVVRTPSLLKGYWNKPEATAEALRD-GWLHTGDIGKIDEQGFL 458
Query: 63 HFI 65
H++
Sbjct: 459 HYL 461
>gnl|CDD|236169 PRK08162, PRK08162, acyl-CoA synthetase; Validated.
Length = 545
Score = 49.2 bits (118), Expect = 7e-09
Identities = 28/61 (45%), Positives = 37/61 (60%), Gaps = 4/61 (6%)
Query: 4 TIIDPVTSVQLP-DGKT-GELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPD 60
T++DP T +P DG+T GE+ +G+ V GY +AT+E GW HTGDLA PD
Sbjct: 371 TVLDPDTMQPVPADGETIGEIMFRGNIVMKGYLKNPKATEEAFAG-GWFHTGDLAVLHPD 429
Query: 61 G 61
G
Sbjct: 430 G 430
>gnl|CDD|178097 PLN02479, PLN02479, acetate-CoA ligase.
Length = 567
Score = 49.1 bits (117), Expect = 8e-09
Identities = 24/60 (40%), Positives = 36/60 (60%), Gaps = 4/60 (6%)
Query: 5 IIDPVTSVQLP-DGKT-GELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
++D T +P DGKT GE+ ++G+ V GY +A +E + GW H+GDL + PDG
Sbjct: 386 VVDTKTMKPVPADGKTMGEIVMRGNMVMKGYLKNPKANEEAFAN-GWFHSGDLGVKHPDG 444
>gnl|CDD|213310 cd05945, DltA, D-alanine:D-alanyl carrier protein ligase (DltA).
DltA belongs to the class I AMP-forming adenylation
domain superfamily, which also includes acetyl-CoA
synthetase, luciferase, and the adenylation domains of
non-ribosomal synthetases. It catalyzes the two-step
activation reaction of D-alanine: the formation of a
substrate-AMP molecule as an intermediate, and then the
transfer of the amino acid adenylate to teichoic acid in
the biosynthesis of lipoteichoic acid (LTA) and wall
teichoic acid (WTA) in gram-positive bacteria.
Length = 447
Score = 49.1 bits (118), Expect = 9e-09
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 4/55 (7%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKE---MLDDDGWLHTGDLAYRLPDGTHF 64
+P G+ GEL + G V GY N E T + + W TGDL Y DG
Sbjct: 293 VPPGEEGELVIAGPQVSPGYLNNPEKTAKAFFQDEGQRWYRTGDLVYLEDDGLLV 347
>gnl|CDD|223951 COG1020, EntF, Non-ribosomal peptide synthetase modules and related
proteins [Secondary metabolites biosynthesis, transport,
and catabolism].
Length = 642
Score = 49.2 bits (117), Expect = 1e-08
Identities = 21/50 (42%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGT 62
LP G GEL + G + LGY N+ + T E TGDLA L DG
Sbjct: 562 LPLGVPGELYIAGLGLALGYLNRPDLTAERFIALRLYRTGDLARPLADGA 611
>gnl|CDD|168698 PRK06839, PRK06839, acyl-CoA synthetase; Validated.
Length = 496
Score = 48.7 bits (116), Expect = 1e-08
Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 3/62 (4%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTH 63
+ID + ++ G+ GEL ++G +V Y N+ +AT+E + D GWL TGDLA DG
Sbjct: 330 LIDENKN-KVEVGEVGELLIRGPNVMKEYWNRPDATEETIQD-GWLCTGDLARVDEDGFV 387
Query: 64 FI 65
+I
Sbjct: 388 YI 389
>gnl|CDD|180988 PRK07470, PRK07470, acyl-CoA synthetase; Validated.
Length = 528
Score = 48.9 bits (117), Expect = 1e-08
Identities = 24/53 (45%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFI 65
LP G+TGE+C+ G VF GY N EA + D GW TGDL + G +I
Sbjct: 361 LPPGETGEICVIGPAVFAGYYNNPEANAKAFRD-GWFRTGDLGHLDARGFLYI 412
>gnl|CDD|235531 PRK05605, PRK05605, long-chain-fatty-acid--CoA ligase; Validated.
Length = 573
Score = 48.8 bits (117), Expect = 1e-08
Identities = 27/63 (42%), Positives = 35/63 (55%), Gaps = 5/63 (7%)
Query: 5 IIDPVT-SVQLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGT 62
I+DP +PDG+ GEL ++G VF GY N+ E T + D GW TGD+ DG
Sbjct: 402 IVDPEDPDETMPDGEEGELLVRGPQVFKGYWNRPEETAKSFLD-GWFRTGDVVVMEEDG- 459
Query: 63 HFI 65
FI
Sbjct: 460 -FI 461
>gnl|CDD|213280 cd05912, OSB_CoA_lg, O-succinylbenzoate-CoA ligase (also known as
O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or
MenE). O-succinylbenzoic acid-CoA synthase catalyzes
the coenzyme A (CoA)- and ATP-dependent conversion of
o-succinylbenzoic acid to o-succinylbenzoyl-CoA. The
reaction is the fourth step of the biosynthesis pathway
of menaquinone (vitamin K2). In certain bacteria,
menaquinone is used during fumarate reduction in
anaerobic respiration. In cyanobacteria, the product of
the menaquinone pathway is phylloquinone
(2-methyl-3-phytyl-1,4-naphthoquinone), a molecule used
exclusively as an electron transfer cofactor in
Photosystem 1. In green sulfur bacteria and
heliobacteria, menaquinones are used as loosely bound
secondary electron acceptors in the photosynthetic
reaction center.
Length = 407
Score = 48.7 bits (117), Expect = 1e-08
Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 8 PVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
P +++ + + GE+ ++G +FLGY + T LD+DGW HTGDL Y +G
Sbjct: 249 PGRELRIVNPQDGEILVRGPSLFLGYLPQGGLTPP-LDEDGWFHTGDLGYLDAEG 302
>gnl|CDD|213276 cd05908, A_NRPS_MycA_like, The adenylation domain of nonribosomal
peptide synthetases (NRPS) similar to mycosubtilin
synthase subunit A (MycA). The adenylation (A) domain
of NRPS recognizes a specific amino acid or hydroxy acid
and activates it as (amino)-acyl adenylate by hydrolysis
of ATP. The activated acyl moiety then forms thioester
to the enzyme-bound cofactor phosphopantetheine of a
peptidyl carrier protein domain. This family includes
NRPS similar to mycosubtilin synthase subunit A (MycA).
Mycosubtilin, which is characterized by a beta-amino
fatty acid moiety linked to the circular heptapeptide
Asn-Tyr-Asn-Gln-Pro-Ser-Asn, belongs to the iturin
family of lipopeptide antibiotics. The mycosubtilin
synthase subunit A (MycA) combines functional domains
derived from peptide synthetases, amino transferases,
and fatty acid synthases. Nonribosomal peptide
synthetases are large multifunction enzymes that
synthesize many therapeutically useful peptides. 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 = 499
Score = 48.4 bits (116), Expect = 1e-08
Identities = 26/51 (50%), Positives = 31/51 (60%), Gaps = 2/51 (3%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDL 54
I+D V LPD G + +KGD V GY N EATK+ + DGWL TGDL
Sbjct: 327 IVDDAGEV-LPDRTIGHIQIKGDNVTSGYYNNPEATKKSITPDGWLKTGDL 376
>gnl|CDD|180393 PRK06087, PRK06087, short chain acyl-CoA synthetase; Reviewed.
Length = 547
Score = 48.6 bits (116), Expect = 1e-08
Identities = 19/44 (43%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 14 LPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAY 56
LP G GE +G +VF+GY ++ E T LD++GW ++GDL
Sbjct: 376 LPPGCEGEEASRGPNVFMGYLDEPELTARALDEEGWYYSGDLCR 419
>gnl|CDD|180666 PRK06710, PRK06710, long-chain-fatty-acid--CoA ligase; Validated.
Length = 563
Score = 48.5 bits (115), Expect = 2e-08
Identities = 27/62 (43%), Positives = 36/62 (58%), Gaps = 2/62 (3%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTH 63
I+ T LP G+ GE+ +KG + GY NK E T +L D GWLHTGD+ Y DG
Sbjct: 389 IMSLETGEALPPGEIGEIVVKGPQIMKGYWNKPEETAAVLQD-GWLHTGDVGYMDEDGFF 447
Query: 64 FI 65
++
Sbjct: 448 YV 449
>gnl|CDD|213325 cd12117, A_NRPS_Srf_like, The adenylation domain of nonribosomal
peptide synthetases (NRPS), including Bacillus subtilis
termination module Surfactin (SrfA-C). 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. 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. This family includes the
adenylation domain of the Bacillus subtilis termination
module (Surfactin domain, SrfA-C) which recognizes a
specific amino acid building block, which is then
activated and transferred to the terminal thiol of the
4'-phosphopantetheine (Ppan) arm of the downstream
peptidyl carrier protein (PCP) domain.
Length = 474
Score = 48.3 bits (116), Expect = 2e-08
Identities = 25/61 (40%), Positives = 30/61 (49%), Gaps = 8/61 (13%)
Query: 13 QLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDD----G--WLHTGDLAYRLPDGT-HF 64
+P G GEL + GD + LGY N+ E T E D G TGDLA PDG F
Sbjct: 317 PVPIGVPGELYVGGDGLALGYLNRPELTAERFVPDPFGPGERLYRTGDLARWRPDGNIEF 376
Query: 65 I 65
+
Sbjct: 377 L 377
>gnl|CDD|213286 cd05919, BCL_like, Benzoate CoA ligase (BCL) and similar adenylate
forming enzymes. This family contains benzoate CoA
ligase (BCL) and related ligases that catalyze the
acylation of benzoate derivatives, 2-aminobenzoate and
4-hydroxybenzoate. Aromatic compounds represent the
second most abundant class of organic carbon compounds
after carbohydrates. Xenobiotic aromatic compounds are
also a major class of man-made pollutants. Some bacteria
use benzoate as the sole source of carbon and energy
through benzoate degradation. Benzoate degradation
starts with its activation to benzoyl-CoA by benzoate
CoA ligase. The reaction catalyzed by benzoate CoA
ligase proceeds via a two-step process; the first
ATP-dependent step forms an acyl-AMP intermediate, and
the second step forms the acyl-CoA ester with release of
the AMP.
Length = 436
Score = 47.0 bits (112), Expect = 5e-08
Identities = 21/50 (42%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGT 62
+P G G+L ++G + GY N E T+ L D GWL TGD R DG
Sbjct: 281 VPAGTVGDLWVRGPSLAPGYWNLPEKTQRTLRD-GWLRTGDRFSRDADGW 329
>gnl|CDD|233550 TIGR01733, AA-adenyl-dom, amino acid adenylation domain. This
model represents a domain responsible for the specific
recognition of amino acids and activation as adenylyl
amino acids. The reaction catalyzed is aa + ATP ->
aa-AMP + PPi. These domains are usually found as
components of multi-domain non-ribosomal peptide
synthetases and are usually called "A-domains" in that
context (for a review, see ). A-domains are almost
invariably followed by "T-domains" (thiolation domains,
pfam00550) to which the amino acid adenylate is
transferred as a thiol-ester to a bound pantetheine
cofactor with the release of AMP (these are also called
peptide carrier proteins, or PCPs. When the A-domain
does not represent the first module (corresponding to
the first amino acid in the product molecule) it is
usually preceded by a "C-domain" (condensation domain,
pfam00668) which catalyzes the ligation of two amino
acid thiol-esters from neighboring modules. This domain
is a subset of the AMP-binding domain found in Pfam
(pfam00501) which also hits substrate--CoA ligases and
luciferases. Sequences scoring in between trusted and
noise for this model may be ambiguous as to whether they
activate amino acids or other molecules lacking an alpha
amino group.
Length = 409
Score = 46.5 bits (111), Expect = 6e-08
Identities = 22/59 (37%), Positives = 26/59 (44%), Gaps = 9/59 (15%)
Query: 13 QLPDGKTGELCLKGD-VFLGYRNKVEATKE-MLDDDGWL-------HTGDLAYRLPDGT 62
+P G GEL + G V GY N+ E T E + D TGDL LPDG
Sbjct: 313 PVPVGVVGELYIGGPGVARGYLNRPELTAERFVPDPFAGGDGARLYRTGDLVRYLPDGN 371
>gnl|CDD|236315 PRK08633, PRK08633, 2-acyl-glycerophospho-ethanolamine
acyltransferase; Validated.
Length = 1146
Score = 45.7 bits (109), Expect = 1e-07
Identities = 24/65 (36%), Positives = 32/65 (49%), Gaps = 4/65 (6%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEML---DDDGWLHTGDLAYRLPD 60
I+DP T +LP G+ G + + G V GY E T E++ D GW TGD + D
Sbjct: 973 IVDPETFEELPPGEDGLILIGGPQVMKGYLGDPEKTAEVIKDIDGIGWYVTGDKGHLDED 1032
Query: 61 GTHFI 65
G I
Sbjct: 1033 GFLTI 1037
>gnl|CDD|213318 cd05971, MACS_like_3, 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 = 439
Score = 45.4 bits (108), Expect = 1e-07
Identities = 25/66 (37%), Positives = 34/66 (51%), Gaps = 7/66 (10%)
Query: 4 TIIDPVTSVQLPDGKTGELCLKGD---VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPD 60
++D +P G+ GE+ +K +FLGY N EAT D WL TGDL R D
Sbjct: 272 AVVDD-AGRPVPPGEVGEIAVKRPDPVMFLGYWNNPEATAAKFAGD-WLLTGDLGRRDAD 329
Query: 61 GTHFIW 66
G ++W
Sbjct: 330 G--YLW 333
>gnl|CDD|166255 PLN02614, PLN02614, long-chain acyl-CoA synthetase.
Length = 666
Score = 45.8 bits (108), Expect = 2e-07
Identities = 21/44 (47%), Positives = 31/44 (70%), Gaps = 2/44 (4%)
Query: 20 GELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGT 62
GE+C++G +F GY + + TKE+L D GWLHTGD+ P+G+
Sbjct: 469 GEICIRGKTLFSGYYKREDLTKEVLID-GWLHTGDVGEWQPNGS 511
>gnl|CDD|235624 PRK05850, PRK05850, acyl-CoA synthetase; Validated.
Length = 578
Score = 45.7 bits (109), Expect = 2e-07
Identities = 28/73 (38%), Positives = 38/73 (52%), Gaps = 13/73 (17%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKE----MLDD------DG-WLHTG 52
I+DP T ++ P G GE+ + GD V GY K E T+ L D +G WL TG
Sbjct: 383 IVDPDTCIECPAGTVGEIWVHGDNVAAGYWQKPEETERTFGATLVDPSPGTPEGPWLRTG 442
Query: 53 DLAYRLPDGTHFI 65
DL + + +G FI
Sbjct: 443 DLGF-ISEGELFI 454
>gnl|CDD|178452 PLN02861, PLN02861, long-chain-fatty-acid-CoA ligase.
Length = 660
Score = 45.2 bits (107), Expect = 2e-07
Identities = 22/50 (44%), Positives = 32/50 (64%), Gaps = 2/50 (4%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGT 62
L D GE+CL+G+ +F GY + + T+E+L D GW HTGD+ P+G
Sbjct: 460 LSDVPRGEICLRGNTLFSGYHKRQDLTEEVLID-GWFHTGDIGEWQPNGA 508
>gnl|CDD|178049 PLN02430, PLN02430, long-chain-fatty-acid-CoA ligase.
Length = 660
Score = 44.8 bits (106), Expect = 3e-07
Identities = 20/43 (46%), Positives = 29/43 (67%), Gaps = 2/43 (4%)
Query: 20 GELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
GE+C++G +F GY E T+E++ D GW HTGD+ LP+G
Sbjct: 466 GEICVRGKCLFSGYYKNPELTEEVMKD-GWFHTGDIGEILPNG 507
>gnl|CDD|213327 cd12119, ttLC_FACS_AlkK_like, Fatty acyl-CoA synthetases similar to
LC-FACS from Thermus thermophiles. This family includes
fatty acyl-CoA synthetases that can activate
medium-chain to long-chain fatty acids. They catalyze
the ATP-dependent acylation 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. The fatty
acyl-CoA synthetases are responsible for fatty acid
degradation as well as physiological regulation of
cellular functions via the production of fatty acyl-CoA
esters. The fatty acyl-CoA synthetase from Thermus
thermophiles in this family was shown catalyzing the
long-chain fatty acid, myristoyl acid, while another
member in this family, the AlkK protein identified from
Pseudomonas oleovorans, targets medium chain fatty
acids. This family also includes uncharacterized FACS
proteins.
Length = 517
Score = 44.1 bits (105), Expect = 5e-07
Identities = 27/60 (45%), Positives = 33/60 (55%), Gaps = 5/60 (8%)
Query: 5 IIDPVTSVQLP-DGKT-GELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
I+D +LP DGKT GEL ++G V Y E T+E L DGW TGD+A DG
Sbjct: 354 IVDDEG-NELPWDGKTVGELVVRGPWVTGSYYKDPEKTEE-LTRDGWFRTGDVAVIDEDG 411
>gnl|CDD|181011 PRK07514, PRK07514, malonyl-CoA synthase; Validated.
Length = 504
Score = 43.7 bits (104), Expect = 8e-07
Identities = 23/58 (39%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
+ DP T +LP G+ G + +KG +VF GY E T E DG+ TGDL G
Sbjct: 334 VTDPETGAELPPGEIGMIEVKGPNVFKGYWRMPEKTAEEFRADGFFITGDLGKIDERG 391
>gnl|CDD|236043 PRK07529, PRK07529, AMP-binding domain protein; Validated.
Length = 632
Score = 43.4 bits (103), Expect = 9e-07
Identities = 20/51 (39%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 17 GKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFIW 66
+ G LC+ G +VF GY K + +DGWL+TGDL DG + W
Sbjct: 415 DEVGVLCIAGPNVFSGYLE-AAHNKGLWLEDGWLNTGDLGRIDADG--YFW 462
>gnl|CDD|236403 PRK09192, PRK09192, acyl-CoA synthetase; Validated.
Length = 579
Score = 43.5 bits (103), Expect = 9e-07
Identities = 22/54 (40%), Positives = 30/54 (55%), Gaps = 3/54 (5%)
Query: 13 QLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFI 65
LP+ G +C++G + GY E+ +L DGWL TGDL Y L DG +I
Sbjct: 405 PLPERVVGHICVRGPSLMSGYFRDEESQD-VLAADGWLDTGDLGYLL-DGYLYI 456
>gnl|CDD|213306 cd05940, FATP_FACS, Fatty acid transport proteins (FATP) play dual
roles as fatty acid transporters and its activation
enzymes. Fatty acid transport protein (FATP) transports
long-chain or very-long-chain fatty acids across the
plasma membrane. FATPs also have fatty acid CoA
synthetase activity, thus playing dual roles as fatty
acid transporters and its activation enzymes. At least
five copies of FATPs are identified in mammalian cells.
This family also includes prokaryotic FATPs. FATPs are
the key players in the trafficking of exogenous fatty
acids into the cell and in intracellular fatty acid
homeostasis.
Length = 444
Score = 43.4 bits (103), Expect = 1e-06
Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 8/55 (14%)
Query: 15 PDGKTGELCLKGDV---FLGYRNKVEATKEMLDD-----DGWLHTGDLAYRLPDG 61
P G+ G L + F GY + K++L D D + +TGDL R G
Sbjct: 278 PPGEVGLLLGEITDRNPFDGYTDDEATEKKILRDVFKKGDAYFNTGDLVRRDGFG 332
>gnl|CDD|171527 PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional.
Length = 612
Score = 42.8 bits (101), Expect = 1e-06
Identities = 29/80 (36%), Positives = 37/80 (46%), Gaps = 20/80 (25%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEML------------------DD 45
I+DP T +LPDG+ GE+ L GD + GY + E T+ DD
Sbjct: 415 IVDPDTGAELPDGEVGEIWLHGDNIGRGYWGRPEETERTFGAKLQSRLAEGSHADGAADD 474
Query: 46 DGWLHTGDLAYRLPDGTHFI 65
WL TGDL L DG +I
Sbjct: 475 GTWLRTGDLGVYL-DGELYI 493
>gnl|CDD|213309 cd05944, FACL_like_4, 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 = 359
Score = 42.3 bits (100), Expect = 2e-06
Identities = 19/50 (38%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 17 GKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFI 65
G+ G L ++G VF GY N +DGWL+TGDL DG ++
Sbjct: 204 GEVGVLAIRGPNVFPGYLNDAHN-AGARLEDGWLNTGDLGRIDADGYLWL 252
>gnl|CDD|181109 PRK07769, PRK07769, long-chain-fatty-acid--CoA ligase; Validated.
Length = 631
Score = 42.0 bits (99), Expect = 2e-06
Identities = 23/69 (33%), Positives = 31/69 (44%), Gaps = 18/69 (26%)
Query: 4 TIIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKEML-----------------DD 45
I+DP T+ +LPDG+ GE+ L G+ + GY K E T DD
Sbjct: 403 VIVDPETASELPDGQIGEIWLHGNNIGTGYWGKPEETAATFQNILKSRLSESHAEGAPDD 462
Query: 46 DGWLHTGDL 54
W+ TGD
Sbjct: 463 ALWVRTGDY 471
>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 = 42.0 bits (100), Expect = 3e-06
Identities = 23/57 (40%), Positives = 27/57 (47%), Gaps = 8/57 (14%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLH-------TGDLAYRLPDGT 62
+P G GEL + G V GY N+ E T E D + TGDLA LPDG
Sbjct: 286 VPVGVPGELYIGGAGVARGYLNRPELTAERFVPDPFGGPGERLYRTGDLARWLPDGN 342
>gnl|CDD|235146 PRK03640, PRK03640, O-succinylbenzoic acid--CoA ligase;
Provisional.
Length = 483
Score = 41.9 bits (99), Expect = 3e-06
Identities = 20/46 (43%), Positives = 29/46 (63%), Gaps = 2/46 (4%)
Query: 12 VQLPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAY 56
V +P + GE+ +KG +V GY N+ +AT+E D GW TGD+ Y
Sbjct: 325 VVVPPFEEGEIVVKGPNVTKGYLNREDATRETFQD-GWFKTGDIGY 369
>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 = 41.9 bits (99), Expect = 3e-06
Identities = 21/52 (40%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHF 64
+ DG+ GEL ++GD GY N+ E T+E W TGD YR DG ++
Sbjct: 351 VADGEIGELWVRGDSSAAGYWNRREKTRETFVG-EWTRTGDKYYRDEDGYYW 401
>gnl|CDD|236120 PRK07867, PRK07867, acyl-CoA synthetase; Validated.
Length = 529
Score = 42.0 bits (99), Expect = 3e-06
Identities = 16/38 (42%), Positives = 20/38 (52%), Gaps = 3/38 (7%)
Query: 29 FLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFIW 66
F GY N EA E + G +GDLAYR DG + +
Sbjct: 364 FEGYYNDPEADAERMRG-GVYWSGDLAYRDADG--YAY 398
>gnl|CDD|213289 cd05922, FACL_like_6, 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 = 350
Score = 41.8 bits (99), Expect = 4e-06
Identities = 20/51 (39%), Positives = 25/51 (49%), Gaps = 6/51 (11%)
Query: 17 GKTGELCLKGD-VFLGYRNKVEATKEMLD-----DDGWLHTGDLAYRLPDG 61
G+ GEL +G V GY N EAT E L + L+TGDL +G
Sbjct: 195 GEVGELVHRGANVMKGYWNDPEATAERLRPGPLPGEIVLYTGDLVRMDEEG 245
>gnl|CDD|213322 cd12114, A_NRPS_TlmIV_like, The adenylation domain of nonribosomal
peptide synthetases (NRPS), including Streptoalloteichus
tallysomycin biosynthesis genes. 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. 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. This family includes the TLM biosynthetic
gene cluster from Streptoalloteichus that consists of
nine NRPS genes; the N-terminal module of TlmVI (NRPS-5)
and the starter module of BlmVI (NRPS-5) are comprised
of the acyl CoA ligase (AL) and acyl carrier protein
(ACP)-like domains, which are thought to be involved in
the biosynthesis of the beta-aminoalaninamide moiety.
Length = 476
Score = 41.4 bits (98), Expect = 4e-06
Identities = 22/53 (41%), Positives = 24/53 (45%), Gaps = 5/53 (9%)
Query: 15 PDGKTGELCLKGD-VFLGYRNKVEATKE--MLDDDG--WLHTGDLAYRLPDGT 62
PD GEL + G V LGY E T E + G TGDL PDGT
Sbjct: 322 PDWVPGELYIGGVGVALGYWGDPELTAERFITHRTGERLYRTGDLGRYRPDGT 374
>gnl|CDD|236091 PRK07768, PRK07768, long-chain-fatty-acid--CoA ligase; Validated.
Length = 545
Score = 41.5 bits (98), Expect = 4e-06
Identities = 19/49 (38%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
LP G + L+G+ V GY ++ D DGWL TGDL Y +G
Sbjct: 381 LPPRGVGVIELRGESVTPGYLT-MDGFIPAQDADGWLDTGDLGYLTEEG 428
>gnl|CDD|235564 PRK05691, PRK05691, peptide synthase; Validated.
Length = 4334
Score = 41.7 bits (98), Expect = 4e-06
Identities = 25/65 (38%), Positives = 35/65 (53%), Gaps = 5/65 (7%)
Query: 5 IIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEAT-KEMLDDDG--WLHTGDLAYRLPD 60
I+DP + L D + GE+ G + GY EA+ K ++ DG WL TGDL + L D
Sbjct: 383 IVDPQSLEVLGDNRVGEIWASGPSIAHGYWRNPEASAKTFVEHDGRTWLRTGDLGF-LRD 441
Query: 61 GTHFI 65
G F+
Sbjct: 442 GELFV 446
Score = 24.7 bits (54), Expect = 3.5
Identities = 21/60 (35%), Positives = 23/60 (38%), Gaps = 18/60 (30%)
Query: 15 PDGKTGELCLKGD-VFLGY------------RNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
P G GELC+ G V GY + A E L TGDLA R DG
Sbjct: 4062 PLGAVGELCVAGTGVGRGYVGDPLRTALAFVPHPFGAPGERL-----YRTGDLARRRSDG 4116
>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 = 5e-06
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 6/53 (11%)
Query: 14 LPDGKTGELCLKGD-----VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
LP G+ G++ ++ +F GY E T+ + D W TGD A + DG
Sbjct: 270 LPPGEEGDIAVRVKPRPPGLFRGYLKDPEKTEATIRGD-WYLTGDRAIKDEDG 321
>gnl|CDD|235923 PRK07059, PRK07059, Long-chain-fatty-acid--CoA ligase; Validated.
Length = 557
Score = 41.2 bits (97), Expect = 6e-06
Identities = 18/49 (36%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 14 LPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
LP G+ GE+C++G V GY N+ + T +++ DG+ TGD+ G
Sbjct: 401 LPLGEPGEICIRGPQVMAGYWNRPDETAKVMTADGFFRTGDVGVMDERG 449
>gnl|CDD|171961 PRK13295, PRK13295, cyclohexanecarboxylate-CoA ligase; Reviewed.
Length = 547
Score = 41.2 bits (97), Expect = 6e-06
Identities = 20/49 (40%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 14 LPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
LP G+ G L ++G F GY + + D DGW TGDLA DG
Sbjct: 387 LPAGQIGRLQVRGCSNFGGYLKRPQLNGT--DADGWFDTGDLARIDADG 433
>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 = 40.7 bits (96), Expect = 9e-06
Identities = 26/68 (38%), Positives = 33/68 (48%), Gaps = 10/68 (14%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKE-MLDDDGWL--------HTGDL 54
++DP +P G GELC+ G V GY N+ E T E + D WL TGDL
Sbjct: 271 VLDPDLEPLVPIGAVGELCIGGPGVARGYLNRPELTAEKFIPDPFWLNNPGGRIYRTGDL 330
Query: 55 AYRLPDGT 62
L DG+
Sbjct: 331 VRYLEDGS 338
>gnl|CDD|181381 PRK08316, PRK08316, acyl-CoA synthetase; Validated.
Length = 523
Score = 40.3 bits (95), Expect = 1e-05
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 14 LPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
+ G+ GE+ + + LGY + E T E GW H+GDL +G
Sbjct: 362 VAPGEVGEIVHRSPQLMLGYWDDPEKTAEAFRG-GWFHSGDLGVMDEEG 409
>gnl|CDD|213324 cd12116, A_NRPS_Ta1_like, The adenylation domain of nonribosomal
peptide synthetases (NRPS), including salinosporamide A
polyketide synthase. 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. 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.
This family includes the myxovirescin (TA) antibiotic
biosynthetic gene in Myxococcus xanthus; TA production
plays a role in predation. It also includes the
salinosporamide A polyketide synthase which is involved
in the biosynthesis of salinosporamide A, a marine
microbial metabolite whose chlorine atom is crucial for
potent proteasome inhibition and anticancer activity.
Length = 438
Score = 40.2 bits (95), Expect = 1e-05
Identities = 23/58 (39%), Positives = 26/58 (44%), Gaps = 8/58 (13%)
Query: 13 QLPDGKTGELCLKGD-VFLGYRNKVEATKEML-----DDDG--WLHTGDLAYRLPDGT 62
+P G GEL + GD V GY + E T E DD G TGDL PDG
Sbjct: 278 PVPPGVPGELYIGGDGVARGYLGRPELTAERFVPDPFDDPGGRLYRTGDLVRWRPDGR 335
>gnl|CDD|213288 cd05921, FCS, Feruloyl-CoA synthetase (FCS). Feruloyl-CoA
synthetase is an essential enzyme in the feruloyl acid
degradation pathway and enables some proteobacteria to
grow on media containing feruloyl acid as the sole
carbon source. It catalyzes the transfer of CoA to the
carboxyl group of ferulic acid, which then forms
feruloyl-CoA in the presence of ATP and Mg2. The
resulting feruloyl-CoA is further degraded to vanillin
and acetyl-CoA. Feruloyl-CoA synthetase (FCS) is a
subfamily of the adenylate-forming enzymes superfamily.
Length = 559
Score = 39.9 bits (94), Expect = 2e-05
Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 8 PVTSVQL-PDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPD 60
P T ++L P+G E+ +KG V GY E T E D++G+ GD A R D
Sbjct: 354 PGTELKLVPNGGKLEVRVKGPNVTPGYWRDPELTAEAFDEEGFYRIGD-AVRFVD 407
>gnl|CDD|180293 PRK05857, PRK05857, acyl-CoA synthetase; Validated.
Length = 540
Score = 39.6 bits (92), Expect = 2e-05
Identities = 24/60 (40%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 7 DPVTSVQLPDGKTGELCLKGDV-FLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFI 65
P P G L +K LGY N E T E+L D GW++TGDL R DG +I
Sbjct: 362 GPTAPGAGPSASFGTLWIKSPANMLGYWNNPERTAEVLID-GWVNTGDLLERREDGFFYI 420
>gnl|CDD|213290 cd05923, CBAL, 4-Chlorobenzoate-CoA ligase (CBAL). CBAL catalyzes
the conversion of 4-chlorobenzoate (4-CB) to
4-chlorobenzoyl-coenzyme A (4-CB-CoA) by the two-step
adenylation and thioester-forming reactions.
4-Chlorobenzoate (4-CBA) is an environmental pollutant
derived from microbial breakdown of aromatic pollutants,
such as polychlorinated biphenyls (PCBs), DDT, and
certain herbicides. The 4-CBA degrading pathway converts
4-CBA to the metabolite 4-hydroxybezoate (4-HBA),
allowing some soil-dwelling microbes to utilize 4-CBA as
an alternate carbon source. This pathway consists of
three chemical steps catalyzed by 4-CBA-CoA ligase,
4-CBA-CoA dehalogenase, and 4HBA-CoA thioesterase in
sequential reactions.
Length = 495
Score = 39.5 bits (92), Expect = 2e-05
Identities = 23/54 (42%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 11 SVQLPDGKTGELCLKGD--VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGT 62
LP+G+ GEL + F GY N+ +AT E L D GW T D+A P GT
Sbjct: 339 DEALPNGEEGELVVAAADATFTGYLNQPQATAEKLQD-GWYRTSDVAVVDPSGT 391
>gnl|CDD|213323 cd12115, A_NRPS_Sfm_like, The adenylation domain of nonribosomal
peptide synthetases (NRPS), including Saframycin A gene
cluster from Streptomyces lavendulae. 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. 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. This family includes the saframycin A gene
cluster from Streptomyces lavendulae which implicates
the NRPS system for assembling the unusual tetrapeptidyl
skeleton in an iterative manner. It also includes
saframycin Mx1 produced by Myxococcus xanthus NRPS.
Length = 449
Score = 38.8 bits (91), Expect = 4e-05
Identities = 19/57 (33%), Positives = 24/57 (42%), Gaps = 9/57 (15%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLH--------TGDLAYRLPDG 61
+P G GEL + G V GY + E T E + + TGDL R DG
Sbjct: 289 VPVGVPGELYIGGAGVARGYLGRPELTAERFLPNPFAGSPGERLYRTGDLVRRRADG 345
>gnl|CDD|236175 PRK08180, PRK08180, feruloyl-CoA synthase; Reviewed.
Length = 614
Score = 38.7 bits (91), Expect = 4e-05
Identities = 22/56 (39%), Positives = 29/56 (51%), Gaps = 5/56 (8%)
Query: 8 PVTSVQL-P-DGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPD 60
P V+L P GK E+ +KG V GY E T E D++G+ +GD A R D
Sbjct: 399 PGCEVKLVPVGGKL-EVRVKGPNVTPGYWRAPELTAEAFDEEGYYRSGD-AVRFVD 452
>gnl|CDD|215576 PLN03102, PLN03102, acyl-activating enzyme; Provisional.
Length = 579
Score = 38.1 bits (88), Expect = 8e-05
Identities = 22/48 (45%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 16 DGKT-GELCLKGDVFL-GYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
DGKT GE+ +KG + GY +AT E GWL+TGD+ PDG
Sbjct: 388 DGKTMGEIVIKGSSIMKGYLKNPKATSEAFKH-GWLNTGDVGVIHPDG 434
>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 = 37.8 bits (88), Expect = 8e-05
Identities = 22/50 (44%), Positives = 24/50 (48%), Gaps = 4/50 (8%)
Query: 15 PDGKTGELCLKGD---VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
G+ GEL LK +F GY E D GW TGDLAYR DG
Sbjct: 286 GPGQVGELALKPGWPSMFRGYLGNEERYASSFVD-GWYLTGDLAYRDEDG 334
>gnl|CDD|236803 PRK10946, entE, enterobactin synthase subunit E; Provisional.
Length = 536
Score = 37.7 bits (88), Expect = 1e-04
Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 13 QLPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
LP G+ G L +G F GY + D +G+ +GDL PDG
Sbjct: 374 PLPQGEVGRLMTRGPYTFRGYYKSPQHNASAFDANGFYCSGDLVSIDPDG 423
>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 = 37.4 bits (87), Expect = 1e-04
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 9/56 (16%)
Query: 17 GKTGELCLKGD------VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFIW 66
G+ GE+ ++ +F+GY E T E+ D G+ HTGD A+ DG ++W
Sbjct: 377 GEEGEIVIRTSDGKPLGLFMGYYRDPERTAEVWHD-GYYHTGDTAWMDEDG--YLW 429
>gnl|CDD|213278 cd05910, FACL_like_1, 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 = 455
Score = 37.4 bits (87), Expect = 1e-04
Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEAT---KEMLDDDGWLHTGDLAYRLPDG 61
LP G+ GE+ + G V Y N+ EAT K + W GDL Y G
Sbjct: 293 LPPGEVGEIIVSGPHVTREYYNRPEATKLAKISDGNRIWHRMGDLGYFDDQG 344
>gnl|CDD|237374 PRK13388, PRK13388, acyl-CoA synthetase; Provisional.
Length = 540
Score = 36.9 bits (86), Expect = 2e-04
Identities = 22/54 (40%), Positives = 26/54 (48%), Gaps = 5/54 (9%)
Query: 15 PDGKTGELCLK--GDVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFIW 66
D GEL F GY N EAT E + G +GDLAYR DG +I+
Sbjct: 347 ADEAIGELVNTAGAGFFEGYYNNPEATAERMRH-GMYWSGDLAYRDADG--WIY 397
>gnl|CDD|213282 cd05914, FACL_like_3, 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 = 448
Score = 36.5 bits (85), Expect = 2e-04
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 8 PVTSVQLPDGKTGELCLKGDVFLGYRNKVEATKEMLDDDGWLHTGDLAY 56
P+ VQ+ GE+ ++G + LGY + AT D W TGDL +
Sbjct: 293 PLPHVQVSIANDGEILVRGSLMLGYLGEPPAT------DDWWATGDLGH 335
>gnl|CDD|235313 PRK04813, PRK04813, D-alanine--poly(phosphoribitol) ligase subunit
1; Provisional.
Length = 503
Score = 36.0 bits (84), Expect = 3e-04
Identities = 26/68 (38%), Positives = 31/68 (45%), Gaps = 5/68 (7%)
Query: 2 SRTIIDPVTSVQLPDGKTGELCLKGD-VFLGYRNKVEATKE---MLDDDGWLHTGDLAYR 57
S +I +LPDG+ GE+ + G V GY N E T E D HTGD Y
Sbjct: 327 SPLLIIDEEGTKLPDGEQGEIVISGPSVSKGYLNNPEKTAEAFFTFDGQPAYHTGDAGY- 385
Query: 58 LPDGTHFI 65
L DG F
Sbjct: 386 LEDGLLFY 393
>gnl|CDD|235719 PRK06155, PRK06155, crotonobetaine/carnitine-CoA ligase;
Provisional.
Length = 542
Score = 35.9 bits (83), Expect = 4e-04
Identities = 23/54 (42%), Positives = 27/54 (50%), Gaps = 5/54 (9%)
Query: 12 VQLPDGKTGELCLKGD---VFL-GYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
+LPDG+ GEL L+ D F GY E T E + W HTGD R DG
Sbjct: 362 QELPDGEPGELLLRADEPFAFATGYFGMPEKTVEAWRNL-WFHTGDRVVRDADG 414
>gnl|CDD|102207 PRK06145, PRK06145, acyl-CoA synthetase; Validated.
Length = 497
Score = 36.0 bits (83), Expect = 4e-04
Identities = 17/44 (38%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 14 LPDGKTGELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAY 56
LP GE+C++G V GY E T E D W +GD+ Y
Sbjct: 340 LPPNMKGEICMRGPKVTKGYWKDPEKTAEAFYGD-WFRSGDVGY 382
>gnl|CDD|162605 TIGR01923, menE, O-succinylbenzoate-CoA ligase. This model
represents an enzyme, O-succinylbenzoate-CoA ligase,
which is involved in the fourth step of the menaquinone
biosynthesis pathway. O-succinylbenzoate-CoA ligase,
together with menB - naphtoate synthase, take
2-succinylbenzoate and convert it into 1,4-di-hydroxy-2-
naphtoate [Biosynthesis of cofactors, prosthetic groups,
and carriers, Menaquinone and ubiquinone].
Length = 436
Score = 35.9 bits (83), Expect = 4e-04
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 20 GELCLKG-DVFLGYRNKVEATKEMLDDDGWLHTGDLAY 56
GE+ +KG ++ GY + E T + GW +TGD+
Sbjct: 293 GEIMVKGANLMKGYLYQGELT-PAFEQQGWFNTGDIGE 329
>gnl|CDD|169098 PRK07786, PRK07786, long-chain-fatty-acid--CoA ligase; Validated.
Length = 542
Score = 35.5 bits (82), Expect = 5e-04
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 4/54 (7%)
Query: 14 LPDGKTGELCLKGDVFL-GYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFIW 66
+P G+ GE+ + + GY N EAT E GW H+GDL + +G ++W
Sbjct: 366 VPVGEVGEIVYRAPTLMSGYWNNPEATAEAFAG-GWFHSGDLVRQDEEG--YVW 416
>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 = 35.1 bits (81), Expect = 8e-04
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 8/66 (12%)
Query: 4 TIIDPVTSVQLPDGKTGELCLKGD-----VFLGYRNKVEATKEMLDDDGWLHTGDLAYRL 58
++D ++P GE+ L + LGY E T G+ TGD AYR
Sbjct: 263 VLLDDE-GKEIPV-TEGEIALDLGDRPIGLMLGYMGDPEKTAAAFRG-GYYRTGDKAYRD 319
Query: 59 PDGTHF 64
DG +
Sbjct: 320 EDGYLW 325
>gnl|CDD|132252 TIGR03208, cyc_hxne_CoA_lg, cyclohexanecarboxylate-CoA ligase.
Members of this protein family are
cyclohexanecarboxylate-CoA ligase. This enzyme prepares
the aliphatic ring compound, cyclohexanecarboxylate, for
dehydrogenation and then degradation by a pathway also
used in benzoyl-CoA degradation in Rhodopseudomonas
palustris.
Length = 538
Score = 34.9 bits (80), Expect = 0.001
Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 7/51 (13%)
Query: 14 LPDGKTGELCLKG-DVFLGY--RNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
L G+TG L ++G F GY R + +T D +GW TGDLA++ +G
Sbjct: 385 LSQGETGRLLVRGCSNFGGYLKRPHLNST----DAEGWFDTGDLAFQDAEG 431
>gnl|CDD|240370 PTZ00342, PTZ00342, acyl-CoA synthetase; Provisional.
Length = 746
Score = 33.9 bits (78), Expect = 0.002
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 20 GELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGT 62
GEL +K D +F GY + E TK +DG+ TGD+ +G+
Sbjct: 542 GELLIKSDSIFSGYFLEKEQTKNAFTEDGYFKTGDIVQINKNGS 585
>gnl|CDD|236443 PRK09274, PRK09274, peptide synthase; Provisional.
Length = 552
Score = 33.7 bits (78), Expect = 0.002
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 5/53 (9%)
Query: 14 LPDGKTGELCLKGDVFL-GYRNKVEATKE--MLDDDG--WLHTGDLAYRLPDG 61
L G+ GE+ + G + Y N+ EAT+ + D G W GDL Y G
Sbjct: 382 LATGEIGEIVVAGPMVTRSYYNRPEATRLAKIPDGQGDVWHRMGDLGYLDAQG 434
>gnl|CDD|233807 TIGR02275, DHB_AMP_lig, 2,3-dihydroxybenzoate-AMP ligase. Proteins
in this family belong to the AMP-binding enzyme family
(pfam00501). Members activate 2,3-dihydroxybenzoate
(DHB) by ligation of AMP from ATP with the release of
pyrophosphate; many are involved in synthesis of
siderophores such as enterobactin, vibriobactin,
vulnibactin, etc. The most closely related proteine
believed to differ in function activates salicylate
rather than DHB [Transport and binding proteins, Cations
and iron carrying compounds].
Length = 526
Score = 33.6 bits (77), Expect = 0.003
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
+ G+TG L +G F GY E D +G+ +TGDL P+G
Sbjct: 373 VAPGETGMLLTRGPYTFRGYYKAPEHNAAAFDAEGFYYTGDLVRLTPEG 421
>gnl|CDD|235625 PRK05852, PRK05852, acyl-CoA synthetase; Validated.
Length = 534
Score = 32.6 bits (74), Expect = 0.007
Identities = 19/42 (45%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDL 54
LP G GE+ L+G V GY T D GWL TGDL
Sbjct: 375 LPAGAVGEVWLRGTTVVRGYLGDPTITAANFTD-GWLRTGDL 415
>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 = 32.4 bits (74), Expect = 0.007
Identities = 14/37 (37%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 28 VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHF 64
F GY + E T E++ W TGDL R DG +
Sbjct: 299 WFSGYWDDPEKTAELIAG-RWYVTGDLVERDEDGYFW 334
>gnl|CDD|223442 COG0365, Acs, Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases
[Lipid metabolism].
Length = 528
Score = 31.9 bits (73), Expect = 0.011
Identities = 16/64 (25%), Positives = 24/64 (37%), Gaps = 6/64 (9%)
Query: 5 IIDPVTSVQLPDGKTGELCLKGD---VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
+D + GEL ++ + L Y N E KE + GD A R DG
Sbjct: 354 RVDDEGNP--VPPGVGELVVRLPWPGMALTYWNDPERYKEAYFGRWYRT-GDWAERDEDG 410
Query: 62 THFI 65
++
Sbjct: 411 YFWL 414
>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 = 31.3 bits (71), Expect = 0.017
Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 13 QLPDGKTGELCLKGDVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
++P G+ G L ++G Y + + + DGW TGD+ + DG
Sbjct: 333 EVPRGEAGRLAVRGPTGCRYLDDERQQEYV--RDGWNVTGDIFRQDEDG 379
>gnl|CDD|235673 PRK06018, PRK06018, putative acyl-CoA synthetase; Provisional.
Length = 542
Score = 31.3 bits (71), Expect = 0.019
Identities = 18/41 (43%), Positives = 25/41 (60%), Gaps = 3/41 (7%)
Query: 16 DGKT-GELCLKGDVFLGYRNKVEATKEMLDDDGWLHTGDLA 55
DGKT G L ++G +V+ E+LDDDG+ TGD+A
Sbjct: 380 DGKTFGRLKVRGPAVAAAYYRVDG--EILDDDGFFDTGDVA 418
>gnl|CDD|237144 PRK12582, PRK12582, acyl-CoA synthetase; Provisional.
Length = 624
Score = 31.2 bits (71), Expect = 0.021
Identities = 20/62 (32%), Positives = 28/62 (45%), Gaps = 11/62 (17%)
Query: 8 PVTSVQL---PDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTH 63
P+ V+L P G E+ +KG V GY E T D++G+ YRL D
Sbjct: 409 PLPGVELKLAPVGDKYEVRVKGPNVTPGYHKDPELTAAAFDEEGF-------YRLGDAAR 461
Query: 64 FI 65
F+
Sbjct: 462 FV 463
>gnl|CDD|183506 PRK12406, PRK12406, long-chain-fatty-acid--CoA ligase; Provisional.
Length = 509
Score = 30.8 bits (70), Expect = 0.023
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 14 LPDGKTGELCLKGDVF--LGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFI 65
LP G+ GE+ + Y NK E E +D G++ +GD+ Y DG F+
Sbjct: 345 LPQGEIGEIYSRIAGNPDFTYHNKPEKRAE-IDRGGFITSGDVGYLDADGYLFL 397
>gnl|CDD|223952 COG1021, EntE, Peptide arylation enzymes [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 542
Score = 30.9 bits (70), Expect = 0.025
Identities = 18/49 (36%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
+ G+ GEL +G GY E D DG+ +GDL R PDG
Sbjct: 380 VAPGEVGELLTRGPYTIRGYYRAPEHNARAFDADGFYRSGDLVRRDPDG 428
>gnl|CDD|213283 cd05915, ttLC_FACS_like, Fatty acyl-CoA synthetases similar to
LC-FACS from Thermus thermophiles. This family includes
fatty acyl-CoA synthetases that can activate
medium-chain to long-chain fatty acids. They catalyze
the ATP-dependent acylation 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. Fatty
acyl-CoA synthetases are responsible for fatty acid
degradation as well as physiological regulation of
cellular functions via the production of fatty acyl-CoA
esters. The fatty acyl-CoA synthetase from Thermus
thermophiles in this family has been shown to catalyze
the long-chain fatty acid, myristoyl acid, while another
member in this family, the AlkK protein identified in
Pseudomonas oleovorans, targets medium chain fatty
acids. This family also includes an uncharacterized
subgroup of FACS.
Length = 509
Score = 30.5 bits (68), Expect = 0.036
Identities = 20/59 (33%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 5 IIDPVTSVQLPDGKTGE-LCLKGD-VFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
+ D DGK + LKG + GY EAT+ L DG+ TGD+A +G
Sbjct: 345 VADEEGRPVPKDGKALGEVQLKGPWITGGYYGNEEATRSALTPDGFFRTGDIAVWDEEG 403
>gnl|CDD|236071 PRK07638, PRK07638, acyl-CoA synthetase; Validated.
Length = 487
Score = 30.5 bits (69), Expect = 0.036
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 17 GKTGELCLKGDV-FLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFI 65
G+ G + +K F+GY +E L+ DGW+ D+ Y +G +I
Sbjct: 331 GEIGTVYVKSPQFFMGYIIGGVLARE-LNADGWMTVRDVGYEDEEGFIYI 379
>gnl|CDD|180533 PRK06334, PRK06334, long chain fatty acid--[acyl-carrier-protein]
ligase; Validated.
Length = 539
Score = 30.2 bits (68), Expect = 0.046
Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 2/67 (2%)
Query: 1 MSRTIIDPVTSVQLPDGKTGELCLKG-DVFLGYRNKVEATKEM-LDDDGWLHTGDLAYRL 58
M I+ T V + G+TG + +G +F GY + + L + W TGDL Y
Sbjct: 362 MDVLIVSEETKVPVSSGETGLVLTRGTSLFSGYLGEDFGQGFVELGGETWYVTGDLGYVD 421
Query: 59 PDGTHFI 65
G F+
Sbjct: 422 RHGELFL 428
>gnl|CDD|236215 PRK08276, PRK08276, long-chain-fatty-acid--CoA ligase; Validated.
Length = 502
Score = 30.3 bits (69), Expect = 0.046
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 13 QLPDGKTGELCLKGDVF-LGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
+LP G+ G + + D + Y N E T + GW+ GD+ Y DG
Sbjct: 334 ELPPGEIGTVYFEMDGYPFEYHNDPEKTAAARNPHGWVTVGDVGYLDEDG 383
>gnl|CDD|213281 cd05913, PaaK, Phenylacetate-CoA ligase (also known as PaaK). PaaK
catalyzes the first step in the aromatic degradation
pathway, by converting phenylacetic acid (PA) into
phenylacetyl-CoA (PA-CoA). Phenylacetate-CoA ligase has
been found in proteobacteria as well as gram positive
prokaryotes. The enzyme is specifically induced after
aerobic growth in a chemically defined medium containing
PA or phenylalanine (Phe) as the sole carbon source.
PaaKs are members of the adenylate-forming enzyme (AFE)
family. However, sequence comparison reveals divergent
features of PaaK with respect to the superfamily,
including a novel N-terminal sequence.
Length = 424
Score = 29.8 bits (67), Expect = 0.063
Identities = 12/20 (60%), Positives = 13/20 (65%)
Query: 5 IIDPVTSVQLPDGKTGELCL 24
IIDP T LPDG+ GEL
Sbjct: 262 IIDPETGEPLPDGEIGELVF 281
>gnl|CDD|236100 PRK07798, PRK07798, acyl-CoA synthetase; Validated.
Length = 533
Score = 29.5 bits (67), Expect = 0.075
Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 4/63 (6%)
Query: 4 TIIDPVTSVQLP-DGKTGELCLKGDVFLGYRNKVEATKEML---DDDGWLHTGDLAYRLP 59
++D + P G+ G + +G + LGY E T E D + GD A
Sbjct: 361 VVLDEDGNPVEPGSGEIGWIARRGHIPLGYYKDPEKTAETFPTIDGVRYAIPGDRARVEA 420
Query: 60 DGT 62
DGT
Sbjct: 421 DGT 423
>gnl|CDD|215217 PLN02387, PLN02387, long-chain-fatty-acid-CoA ligase family
protein.
Length = 696
Score = 28.9 bits (65), Expect = 0.11
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 5/47 (10%)
Query: 20 GELCLKG-DVFLGYRNKVEATKEM--LDDDG--WLHTGDLAYRLPDG 61
GE+ + G V LGY E T E+ +D+ G W +TGD+ PDG
Sbjct: 503 GEIVIGGPSVTLGYFKNQEKTDEVYKVDERGMRWFYTGDIGQFHPDG 549
>gnl|CDD|131210 TIGR02155, PA_CoA_ligase, phenylacetate-CoA ligase.
Phenylacetate-CoA ligase (PA-CoA ligase) catalyzes the
first step in aromatic catabolism of phenylacetic acid
(PA) into phenylacetyl-CoA (PA-CoA). Often located in a
conserved gene cluster with enzymes involved in
phenylacetic acid activation (paaG/H/I/J),
phenylacetate-CoA ligase has been found among the
proteobacteria as well as in gram positive prokaryotes.
In the B-subclass proteobacterium Azoarcus evansii,
phenylacetate-CoA ligase has been shown to be induced
under aerobic and anaerobic growth conditions. It
remains unclear however, whether this induction is due
to the same enzyme or to another isoenzyme restricted to
specific anaerobic growth conditions [Energy metabolism,
Other].
Length = 422
Score = 28.2 bits (63), Expect = 0.21
Identities = 12/20 (60%), Positives = 13/20 (65%)
Query: 5 IIDPVTSVQLPDGKTGELCL 24
IIDP T LPDG+ GEL
Sbjct: 259 IIDPHTGEVLPDGEEGELVF 278
>gnl|CDD|224458 COG1541, PaaK, Coenzyme F390 synthetase [Coenzyme metabolism].
Length = 438
Score = 28.1 bits (63), Expect = 0.22
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 5 IIDPVTSVQLPDGKTGEL 22
I+DP T QLPDG+ GEL
Sbjct: 272 IVDPETGEQLPDGERGEL 289
>gnl|CDD|180167 PRK05620, PRK05620, long-chain-fatty-acid--CoA ligase; Validated.
Length = 576
Score = 28.2 bits (63), Expect = 0.22
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 36 VEATKEMLDDDGWLHTGDLAYRLPDG 61
VE + DGWL TGD+ DG
Sbjct: 419 VEDANDRFTADGWLRTGDVGSVTRDG 444
>gnl|CDD|215464 PLN02860, PLN02860, o-succinylbenzoate-CoA ligase.
Length = 563
Score = 27.8 bits (62), Expect = 0.33
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 28 VFLGYRNKVEATKEMLDDDGWLHTGDL 54
V LGY + T +L +DGWL TGD+
Sbjct: 395 VMLGYWGQNSETASVLSNDGWLDTGDI 421
>gnl|CDD|204784 pfam11932, DUF3450, Protein of unknown function (DUF3450). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria and eukaryotes.
Proteins in this family are about 260 amino acids in
length.
Length = 250
Score = 27.6 bits (62), Expect = 0.33
Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 9/46 (19%)
Query: 30 LGYRNKVEATKEMLDDDG------WLHTGDLA--YRLPDGTH-FIW 66
Y +E + + DG +L G +A Y+ DG +W
Sbjct: 163 ADYGRTIEVYQGEITLDGEPREVDFLRLGRVALYYQTLDGKQAGVW 208
>gnl|CDD|235279 PRK04319, PRK04319, acetyl-CoA synthetase; Provisional.
Length = 570
Score = 27.6 bits (62), Expect = 0.34
Identities = 15/51 (29%), Positives = 20/51 (39%), Gaps = 4/51 (7%)
Query: 14 LPDGKTGELCLKG---DVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
LP + G L +K + G N E + W +GD AY DG
Sbjct: 397 LPPNRMGNLAIKKGWPSMMRGIWNNPEKYESYFAG-DWYVSGDSAYMDEDG 446
>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 = 27.3 bits (61), Expect = 0.51
Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 7/68 (10%)
Query: 4 TIIDPVTSVQLPDGKTGELCLKGDV----FLGYRNKVEATKEML--DDDGWLHTGDLAYR 57
++D T +L G+ G + +K + L E K++ G+ TGD Y+
Sbjct: 413 QVLDE-TGEELGPGELGNIVIKLPLPPGCLLTLWGDDERFKKLYLNKFPGYYDTGDSGYK 471
Query: 58 LPDGTHFI 65
DG F+
Sbjct: 472 DEDGYLFV 479
>gnl|CDD|238522 cd01089, PA2G4-like, Related to aminopepdidase M, this family
contains proliferation-associated protein 2G4. Family
members have been implicated in cell cycle control.
Length = 228
Score = 26.9 bits (60), Expect = 0.52
Identities = 11/43 (25%), Positives = 20/43 (46%), Gaps = 6/43 (13%)
Query: 4 TIIDPVTSVQLPDGKTGELCLKGDVFLG------YRNKVEATK 40
++ V S+ +P K +LC KGD + Y+ + + K
Sbjct: 13 KVLKQVISLCVPGAKVVDLCEKGDKLILEELGKVYKKEKKLEK 55
>gnl|CDD|211782 TIGR03064, sortase_srtB, sortase, SrtB family. Members of this
transpeptidase family are, in most cases, designated
sortase B, product of the srtB gene. This protein shows
only distant similarity to the sortase A family, for
which there may be several members in a single bacterial
genome. Typical SrtB substrate motifs include NAKTN,
NPKSS, etc, and otherwise resemble the LPXTG sorting
signals recognized by sortase A proteins [Cell envelope,
Other, Protein fate, Protein and peptide secretion and
trafficking].
Length = 232
Score = 26.9 bits (60), Expect = 0.59
Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 8/45 (17%)
Query: 20 GELCLKGDVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHF 64
GE G +F+ YRNKV+ D + L+ + + D + F
Sbjct: 100 GEESRAGSIFMDYRNKVDFE----DRNTILY----GHHMADNSMF 136
>gnl|CDD|226898 COG4509, COG4509, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 244
Score = 26.7 bits (59), Expect = 0.70
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 8/45 (17%)
Query: 20 GELCLKGDVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGTHF 64
GE G +F+ YRNKV LD +T + + D + F
Sbjct: 103 GEHSRAGSIFMDYRNKVTF----LDK----NTIIYGHHMADNSMF 139
>gnl|CDD|235908 PRK07008, PRK07008, long-chain-fatty-acid--CoA ligase; Validated.
Length = 539
Score = 26.2 bits (58), Expect = 1.2
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 13 QLP-DGKT-GELCLKGDVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDG 61
+LP DGK G+L ++G + + +A+ DGW TGD+A DG
Sbjct: 376 ELPWDGKAFGDLQVRGPWVIDRYFRGDASPL---VDGWFPTGDVATIDADG 423
>gnl|CDD|180289 PRK05851, PRK05851, long-chain-fatty-acid--[acyl-carrier-protein]
ligase; Validated.
Length = 525
Score = 26.3 bits (58), Expect = 1.2
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 43 LDDDGWLHTGDLAYRLPDG 61
+D D W TGDL Y + G
Sbjct: 392 IDPDDWFPTGDLGYLVDGG 410
>gnl|CDD|237054 PRK12316, PRK12316, peptide synthase; Provisional.
Length = 5163
Score = 26.1 bits (57), Expect = 1.5
Identities = 21/56 (37%), Positives = 23/56 (41%), Gaps = 8/56 (14%)
Query: 14 LPDGKTGELCLKGD-VFLGYRNKVEATKEML-----DDDG--WLHTGDLAYRLPDG 61
LP G GEL L G+ V GY + T E G TGDLA DG
Sbjct: 4888 LPVGVAGELYLGGEGVARGYLERPALTAERFVPDPFGAPGGRLYRTGDLARYRADG 4943
>gnl|CDD|173878 cd08513, PBP2_thermophilic_Hb8_like, The substrate-binding
component of ABC-type thermophilic oligopeptide-binding
protein Hb8-like import systems, contains the type 2
periplasmic binding fold. This family includes the
substrate-binding domain of an ABC-type
oligopeptide-binding protein Hb8 from Thermus
thermophilius and its closest homologs from other
bacteria. The structural topology of this
substrate-binding domain is similar to those of DppA
from Escherichia coli and OppA from Salmonella
typhimurium, and thus belongs to the type 2 periplasmic
binding fold protein (PBP2) superfamily. 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.
The type 2 periplasmic binding proteins are soluble
ligand-binding components of ABC or tripartite
ATP-independent transporters and chemotaxis systems.
Members of the PBP2 superfamily function in uptake of a
variety of metabolites in bacteria such as amino acids,
carbohydrate, ions, and polyamines. Ligands are then
transported across the cytoplasmic membrane energized by
ATP hydrolysis or electrochemical ion gradient. 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 = 482
Score = 25.7 bits (57), Expect = 1.7
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 36 VEATKEMLDDDGWLHTGDLAYRLPDGT 62
E K++LD+ GW D R DGT
Sbjct: 309 PEKAKQLLDEAGWKLGPDGGIREKDGT 335
>gnl|CDD|184022 PRK13391, PRK13391, acyl-CoA synthetase; Provisional.
Length = 511
Score = 25.8 bits (57), Expect = 1.9
Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 14 LPDGKTGELCLKGDVFLGYRNKVEATKEMLDDDG-WLHTGDLAYRLPDG 61
LP G+ G + +G Y N T E DG W GD+ Y DG
Sbjct: 348 LPPGEPGTIWFEGGRPFEYLNDPAKTAEARHPDGTWSTVGDIGYVDEDG 396
>gnl|CDD|235892 PRK06938, PRK06938, diaminobutyrate--2-oxoglutarate
aminotransferase; Provisional.
Length = 464
Score = 25.4 bits (56), Expect = 2.1
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 7/51 (13%)
Query: 9 VTSVQLPDGKTGELCLKG--DVFLGYRNKV--EATKEMLDDDGWLHTGDLA 55
V V +G+ CL G + LG+ + V EA +++L D+ LHT DL
Sbjct: 57 VEDV---EGRQFIDCLAGAGTLALGHNHPVVIEAIQQVLADELPLHTLDLT 104
>gnl|CDD|235172 PRK03906, PRK03906, mannonate dehydratase; Provisional.
Length = 385
Score = 25.6 bits (57), Expect = 2.2
Identities = 10/15 (66%), Positives = 11/15 (73%), Gaps = 1/15 (6%)
Query: 48 WLHTGDLAYRLPDGT 62
W T DLAY LPDG+
Sbjct: 110 WTRT-DLAYELPDGS 123
>gnl|CDD|151190 pfam10694, DUF2500, Protein of unknown function (DUF2500). The
members of this family are largely confined to the
Gammaproteobacteria. The function is not known.
Length = 107
Score = 24.5 bits (54), Expect = 3.1
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 13 QLPDGKTGELCLKGDVFLGYR 33
L +G G+L +G FLG+
Sbjct: 86 ALNEGDKGKLTYQGTRFLGFA 106
>gnl|CDD|223238 COG0160, GabT, 4-aminobutyrate aminotransferase and related
aminotransferases [Amino acid transport and
metabolism].
Length = 447
Score = 24.9 bits (55), Expect = 3.4
Identities = 12/29 (41%), Positives = 14/29 (48%), Gaps = 2/29 (6%)
Query: 30 LGYRNK--VEATKEMLDDDGWLHTGDLAY 56
LG+ + VEA K L HT DL Y
Sbjct: 70 LGHNHPRVVEAVKRQLAKLNHTHTRDLYY 98
>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 = 24.9 bits (55), Expect = 3.4
Identities = 8/21 (38%), Positives = 10/21 (47%), Gaps = 1/21 (4%)
Query: 45 DDGWLHTGDLAYRLPDGTHFI 65
W+H GD A DG +I
Sbjct: 334 PGVWVH-GDWALVDEDGYWYI 353
>gnl|CDD|182837 PRK10918, PRK10918, phosphate ABC transporter periplasmic
substrate-binding protein PstS; Provisional.
Length = 346
Score = 24.8 bits (54), Expect = 4.1
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 4/27 (14%)
Query: 9 VTSVQLPDGKTGELCLK----GDVFLG 31
V +V +P K+GEL L GD++LG
Sbjct: 105 VLAVNIPGLKSGELVLDGKTLGDIYLG 131
>gnl|CDD|173875 cd08510, PBP2_Lactococcal_OppA_like, The substrate binding
component of an ABC-type lactococcal OppA-like transport
system contains. This family represents the substrate
binding domain of an ATP-binding cassette (ABC)-type
oligopeptide import system from Lactococcus lactis and
other gram-positive bacteria, as well as its closet
homologs from gram-negative bacteria.
Oligopeptide-binding protein (OppA) from Lactococcus
lactis can bind peptides of length from 4 to at least 35
residues without sequence preference. The oligopeptide
import system OppABCDEF is consisting of five subunits:
two homologous integral membrane proteins OppB and OppF
that form the translocation pore; two homologous
nucleotide-binding domains OppD and OppF that drive the
transport process through binding and hydrolysis of ATP;
and the substrate-binding protein or receptor OppA that
determines the substrate specificity of the transport
system. The dipeptide (DppA) and oligopeptide (OppA)
binding proteins differ in several ways. The DppA binds
dipeptides and some tripeptides and also is involved in
chemotaxis toward dipeptides, whereas the OppA binds
peptides of a wide range of lengths (2-35 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 = 516
Score = 24.5 bits (54), Expect = 4.3
Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 31 GYRNKVEATKEMLDDDGW-LHTGDLAYRLPDGTHF 64
GY E K++LD+ G+ GD PDG
Sbjct: 338 GYTYDPEKAKKLLDEAGYKDVDGDGFREDPDGKPL 372
>gnl|CDD|187832 cd09701, Cas10_III, CRISPR/Cas system-associated protein Cas10.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Multidomain protein with permuted HD nuclease domain,
inactivated palm domain and Zn-ribbon; signature gene
for type III.
Length = 909
Score = 24.7 bits (54), Expect = 4.7
Identities = 14/68 (20%), Positives = 17/68 (25%), Gaps = 7/68 (10%)
Query: 4 TIIDPVTSVQLPDGKTGELCLKGDVFLGYRNKV-------EATKEMLDDDGWLHTGDLAY 56
DP + D E K + K LD L GD+ Y
Sbjct: 702 VEEDPWIQEERHDENYLEKTKKLVQVNRRSVPLFWAQSYSTKDKRWLDLWSPLKRGDIKY 761
Query: 57 RLPDGTHF 64
P F
Sbjct: 762 LHPGTLCF 769
>gnl|CDD|236363 PRK09029, PRK09029, O-succinylbenzoic acid--CoA ligase;
Provisional.
Length = 458
Score = 24.4 bits (54), Expect = 5.0
Identities = 5/12 (41%), Positives = 8/12 (66%)
Query: 43 LDDDGWLHTGDL 54
++D+GW T D
Sbjct: 328 VNDEGWFATRDR 339
>gnl|CDD|215750 pfam00149, Metallophos, Calcineurin-like phosphoesterase. This
family includes a diverse range of phosphoesterases,
including protein phosphoserine phosphatases,
nucleotidases, sphingomyelin phosphodiesterases and
2'-3' cAMP phosphodiesterases as well as nucleases such
as bacterial SbcD or yeast MRE11. The most conserved
regions in this superfamily centre around the metal
chelating residues.
Length = 185
Score = 24.3 bits (52), Expect = 5.3
Identities = 10/46 (21%), Positives = 13/46 (28%), Gaps = 5/46 (10%)
Query: 26 GDVFLGY-----RNKVEATKEMLDDDGWLHTGDLAYRLPDGTHFIW 66
GD+ G + D L GDL R P +
Sbjct: 6 GDLHGGLDDLDLLLLLLELLGEPKPDLVLFLGDLVDRGPPSLEVLA 51
>gnl|CDD|225370 COG2813, RsmC, 16S RNA G1207 methylase RsmC [Translation, ribosomal
structure and biogenesis].
Length = 300
Score = 24.2 bits (53), Expect = 5.4
Identities = 7/34 (20%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 26 GDVFLGYRNK--VEATKEMLDDDGWLHTGDLAYR 57
G++ + + V + ++ML+ G D A
Sbjct: 67 GEIVVVGEKRDGVRSAEKMLEKYGGPTKTDSARH 100
>gnl|CDD|184196 PRK13636, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 283
Score = 24.4 bits (53), Expect = 5.6
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 45 DDGWLHTGDLAYRLPDGTH 63
+D L +L Y DGTH
Sbjct: 2 EDYILKVEELNYNYSDGTH 20
>gnl|CDD|177163 MTH00101, ATP6, ATP synthase F0 subunit 6; Validated.
Length = 226
Score = 24.1 bits (53), Expect = 6.1
Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 14/37 (37%)
Query: 26 GDVFLGYRNKVEATKEMLDDDGWLHTGDLAYRLPDGT 62
G V G+RNK +A+ LA+ LP GT
Sbjct: 111 GTVITGFRNKTKAS--------------LAHFLPQGT 133
>gnl|CDD|238135 cd00220, VMO-I, Vitelline membrane outer layer protein I (VMO-I)
domain, VMO-I is one of the proteins found in the outer
layer of the vitelline membrane of poultry eggs; VMO-I,
lysozyme, and VMO-II are tightly bound to ovomucin; this
complex forms the backbone of the outer layer; VMO-I
has three distinct internal repeats; all three repeats
are used to define the domain here; VMO-I has recently
been shown to synthesize N-acetylchito-oligosaccharides
from N-acetylglucosamine; may be a carbohydrate-binding
protein; member of the beta-prism-fold family.
Length = 177
Score = 23.5 bits (51), Expect = 9.4
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 6 IDPVTSVQLPDGKTGEL--CLKGDVFLGYRNKVEATKEMLDDDG 47
+ + S + P G E+ C G V +G+ + E + DD G
Sbjct: 63 ENEIISGEGPWGSWREIQWCPNGTVIVGFALRSEPEQGKGDDTG 106
>gnl|CDD|197328 cd09094, INPP5c_INPP5J-like, Catalytic inositol polyphosphate
5-phosphatase (INPP5c) domain of inositol polyphosphate
5-phosphatase J and related proteins. INPP5c domain of
Inositol polyphosphate-5-phosphatase J (INPP5J), also
known as PIB5PA or PIPP, and related proteins. This
subfamily belongs to a family of Mg2+-dependent inositol
polyphosphate 5-phosphatases, which hydrolyze the
5-phosphate from the inositol ring of various 5-position
phosphorylated phosphoinositides (PIs) and inositol
phosphates (IPs), and to the large EEP
(exonuclease/endonuclease/phosphatase) superfamily that
contains functionally diverse enzymes that share a
common catalytic mechanism of cleaving phosphodiester
bonds. INPP5J hydrolyzes PI(4,5)P2, I(1,4,5)P3, and
I(1,3,4,5)P4 at ruffling membranes. These proteins
contain a C-terminal, SKIP carboxyl homology domain
(SKICH), which may direct plasma membrane ruffle
localization.
Length = 300
Score = 23.5 bits (51), Expect = 9.7
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 39 TKEMLDDDGWLHTGDLAYRLPD-GTHFI 65
T +LD D GDL +R+ D F+
Sbjct: 165 TPSILDHDYVFWFGDLNFRIEDVSIEFV 192
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
0.320 0.142 0.456
Gapped
Lambda K H
0.267 0.0776 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,464,691
Number of extensions: 247281
Number of successful extensions: 479
Number of sequences better than 10.0: 1
Number of HSP's gapped: 408
Number of HSP's successfully gapped: 154
Length of query: 66
Length of database: 10,937,602
Length adjustment: 37
Effective length of query: 29
Effective length of database: 9,296,504
Effective search space: 269598616
Effective search space used: 269598616
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.1 bits)