RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10042
(102 letters)
>gnl|CDD|215353 PLN02654, PLN02654, acetate-CoA ligase.
Length = 666
Score = 117 bits (294), Expect = 4e-32
Identities = 45/98 (45%), Positives = 64/98 (65%)
Query: 5 LYEPNADLSKKSYISTMAKYQEVYKKSIECPEEFWGQIAKQFHWETPIDLDRFHSHNFNI 64
L P+ D S ++ +S+ +Y E+YK+S++ P FW IA QF+W+ + D S N ++
Sbjct: 13 LVFPSKDFSAQALVSSPQQYMEMYKRSVDDPAGFWSDIASQFYWKQKWEGDEVCSENLDV 72
Query: 65 SNGPISIKWLEGATTNICYNLLDRNIRLGLGDKVAFYW 102
GPISI+W +G TNICYN LDRN+ G GDK+A YW
Sbjct: 73 RKGPISIEWFKGGKTNICYNCLDRNVEAGNGDKIAIYW 110
>gnl|CDD|221322 pfam11930, DUF3448, Domain of unknown function (DUF3448). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria, archaea and eukaryotes.
This domain is about 80 amino acids in length. This
domain is found associated with pfam00501. This domain
has a conserved DRH sequence motif. This domain has two
completely conserved residues (N and A) that may be
functionally important.
Length = 82
Score = 86.4 bits (215), Expect = 6e-24
Identities = 35/85 (41%), Positives = 44/85 (51%), Gaps = 11/85 (12%)
Query: 20 TMAKYQEVYKKSIECPEEFWGQIAKQFHWETPID--LDRFHSHNFNISNGPISIKWLEGA 77
M YQE+Y++SIE PE FW + A++ W P D LD + IKW G
Sbjct: 3 DMEAYQELYEESIEDPEGFWAEQAEELDWFKPWDKVLD---------WSNAPFIKWFVGG 53
Query: 78 TTNICYNLLDRNIRLGLGDKVAFYW 102
N YN LDR++ G GDKVA W
Sbjct: 54 KLNASYNCLDRHLETGRGDKVAIIW 78
>gnl|CDD|213313 cd05966, ACS, Acetyl-CoA synthetase (also known as acetate-CoA
ligase and acetyl-activating enzyme). Acetyl-CoA
synthetase (ACS) catalyzes the formation of acetyl-CoA
from acetate, CoA, and ATP. Synthesis of acetyl-CoA is
carried out in a two-step reaction. In the first step,
the enzyme catalyzes the synthesis of acetyl-AMP
intermediate from acetate and ATP. In the second step,
acetyl-AMP reacts with CoA to produce acetyl-CoA. This
enzyme is widely present in all living organisms. The
activity of this enzyme is crucial for maintaining the
required levels of acetyl-CoA, a key intermediate in
many important biosynthetic and catabolic processes.
Acetyl-CoA is used in the biosynthesis of glucose, fatty
acids, and cholesterol. It can also be used in the
production of energy in the citric acid cycle.
Eukaryotes typically have two isoforms of acetyl-CoA
synthetase, a cytosolic form involved in biosynthetic
processes and a mitochondrial form primarily involved in
energy generation.
Length = 602
Score = 93.8 bits (234), Expect = 6e-24
Identities = 31/75 (41%), Positives = 39/75 (52%), Gaps = 7/75 (9%)
Query: 28 YKKSIECPEEFWGQIAKQFHWETPIDLDRFHSHNFNISNGPISIKWLEGATTNICYNLLD 87
YK+SIE PEEFW + A++ W P D S P KW G N YN LD
Sbjct: 1 YKESIEDPEEFWAEQAEELDWFKPWDKVLDWS-------NPPFAKWFVGGKLNASYNCLD 53
Query: 88 RNIRLGLGDKVAFYW 102
R+++ G G+KVA W
Sbjct: 54 RHLKAGRGNKVAIIW 68
>gnl|CDD|234677 PRK00174, PRK00174, acetyl-CoA synthetase; Provisional.
Length = 637
Score = 92.9 bits (232), Expect = 2e-23
Identities = 35/100 (35%), Positives = 52/100 (52%), Gaps = 14/100 (14%)
Query: 5 LYEPNADLSKKSYISTMAKYQEVYKKSIECPEEFWGQIAKQFHWETPID--LDRFHSHNF 62
++ P A+ + + I M +Y+ +Y++S+E PE FW + AK+ W P D LD
Sbjct: 1 VFPPPAEFAANALID-MEQYKALYQESVEDPEGFWAEQAKRLDWFKPFDTVLD------- 52
Query: 63 NISNGPISIKWLEGATTNICYNLLDRNIRLGLGDKVAFYW 102
IKW E N+ YN LDR+++ GDKVA W
Sbjct: 53 ---WNAPFIKWFEDGELNVSYNCLDRHLKTR-GDKVAIIW 88
>gnl|CDD|182517 PRK10524, prpE, propionyl-CoA synthetase; Provisional.
Length = 629
Score = 74.2 bits (183), Expect = 5e-17
Identities = 27/70 (38%), Positives = 39/70 (55%), Gaps = 11/70 (15%)
Query: 21 MAKYQEVYKKSIECPEEFWGQIAKQFHWETPID--LDRFHSHNFNISNGPISIKWLEGAT 78
M Y E Y++SI+ PE FW + A++ W+TP LD SN P + +W G
Sbjct: 1 MMSYSEFYQRSIDDPEAFWAEQARRIDWQTPFTQVLDY--------SNPPFA-RWFVGGR 51
Query: 79 TNICYNLLDR 88
TN+C+N +DR
Sbjct: 52 TNLCHNAVDR 61
>gnl|CDD|233770 TIGR02188, Ac_CoA_lig_AcsA, acetate--CoA ligase. This model
describes acetate-CoA ligase (EC 6.2.1.1), also called
acetyl-CoA synthetase and acetyl-activating enzyme. It
catalyzes the reaction ATP + acetate + CoA = AMP +
diphosphate + acetyl-CoA and belongs to the family of
AMP-binding enzymes described by pfam00501.
Length = 625
Score = 70.7 bits (174), Expect = 9e-16
Identities = 28/86 (32%), Positives = 47/86 (54%), Gaps = 9/86 (10%)
Query: 18 ISTMAKYQEVYKKSIECPEEFWGQIAKQ-FHWETPIDLDRFHSHNFNISNGPISIKWLEG 76
I+ + +Y+E+Y++SIE P++FW ++A++ W P + + S P KW G
Sbjct: 1 IANLEQYKELYEESIEDPDKFWAKLARELLDWFKP------FTKVLDWSFPP-FYKWFVG 53
Query: 77 ATTNICYNLLDRNIRLGLGDKVAFYW 102
N+ YN +DR++ DKVA W
Sbjct: 54 GELNVSYNCVDRHLE-ARPDKVAIIW 78
>gnl|CDD|131369 TIGR02316, propion_prpE, propionate--CoA ligase. This family
contains one of three readily separable clades of
proteins in the group of acetate and propionate--CoA
ligases. Characterized members of this family act on
propionate. From propionyl-CoA, there is a cyclic
degradation pathway: it is ligated by PrpC to the TCA
cycle intermediate oxaloacetate, acted upon further by
PrpD and an aconitase, then cleaved by PrpB to pyruvate
and the TCA cycle intermediate succinate.
Length = 628
Score = 63.4 bits (154), Expect = 3e-13
Identities = 26/68 (38%), Positives = 41/68 (60%), Gaps = 7/68 (10%)
Query: 23 KYQEVYKKSIECPEEFWGQIAKQFHWETPIDLDRFHSHNFNISNGPISIKWLEGATTNIC 82
+Y+E Y++SIE PE FW + A++ W+TP + SN P + +W G TN+C
Sbjct: 2 RYEEFYQRSIEQPEAFWAEQARRIDWQTP------PQRILDYSNPPFA-RWFAGGRTNLC 54
Query: 83 YNLLDRNI 90
+N LDR++
Sbjct: 55 HNALDRHL 62
>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 = 62.7 bits (153), Expect = 6e-13
Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 11/70 (15%)
Query: 35 PEEFWGQIAKQFHWETPID--LDRFHSHNFNISNGPISIKWLEGATTNICYNLLDRNIRL 92
PE FW + A W P + LD + P +W G N+CYN +DR+I
Sbjct: 3 PEAFWAEQANLIDWYKPWEKVLDNSN---------PPFTRWFVGGRLNLCYNAVDRHIED 53
Query: 93 GLGDKVAFYW 102
G GD++A +
Sbjct: 54 GRGDQIALIY 63
>gnl|CDD|223442 COG0365, Acs, Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases
[Lipid metabolism].
Length = 528
Score = 45.4 bits (108), Expect = 7e-07
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 72 KWLEGATTNICYNLLDRNIRLGLGDKVAFYW 102
KW EG T N+ N LDR++ D A +
Sbjct: 1 KWFEGGTLNLALNALDRHLEADRPDDTAIIF 31
>gnl|CDD|240325 PTZ00237, PTZ00237, acetyl-CoA synthetase; Provisional.
Length = 647
Score = 39.7 bits (93), Expect = 7e-05
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 9/69 (13%)
Query: 24 YQEVYKKSIECPEEFWGQIAKQF-HWETPIDLDRFHSHNFNISNGPISIKWLEGATTNIC 82
Y+ + PE FW ++AK++ HW+ D+ +S + I W +G N C
Sbjct: 10 YENDSNYANSNPESFWDEVAKKYVHWDKM--YDKVYSGD------EIYPDWFKGGELNTC 61
Query: 83 YNLLDRNIR 91
YN+LD +++
Sbjct: 62 YNVLDIHVK 70
>gnl|CDD|235279 PRK04319, PRK04319, acetyl-CoA synthetase; Provisional.
Length = 570
Score = 35.3 bits (82), Expect = 0.003
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 73 WLEGATTNICYNLLDRNIRLGLGDKVAFYW 102
WLE NI Y +DR+ G DKVA +
Sbjct: 36 WLETGKVNIAYEAIDRHADGGRKDKVALRY 65
>gnl|CDD|213312 cd05959, BCL_4HBCL, Benzoate CoA ligase (BCL) and
4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase).
Benzoate CoA ligase and 4-hydroxybenzoate-coenzyme A
ligase catalyze the first activating step for benzoate
and 4-hydroxybenzoate catabolic pathways, respectively.
Although these two enzymes share very high sequence
homology, they have their own substrate preference. The
reaction proceeds via a two-step process; the first
ATP-dependent step forms the substrate-AMP intermediate,
while the second step forms the acyl-CoA ester,
releasing the AMP. Aromatic compounds represent the
second most abundant class of organic carbon compounds
after carbohydrates. Some bacteria can use benzoic acid
or benzenoid compounds as the sole source of carbon and
energy through degradation. Benzoate CoA ligase and
4-hydroxybenzoate-Coenzyme A ligase are key enzymes of
this process.
Length = 506
Score = 30.8 bits (70), Expect = 0.080
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 80 NICYNLLDRNIRLGLGDKVAFY 101
N LDR++ G GDK+A Y
Sbjct: 4 NAAVYFLDRHLNEGRGDKIALY 25
>gnl|CDD|221111 pfam11443, DUF2828, Domain of unknown function (DUF2828). This is
a uncharacterized domain found in eukaryotes and
viruses.
Length = 414
Score = 28.1 bits (63), Expect = 0.67
Identities = 10/44 (22%), Positives = 16/44 (36%), Gaps = 9/44 (20%)
Query: 65 SNGPISIKWLEGA-------TTNICYNLLDRNIRLGLGDKVAFY 101
+ A I +NL R++R G G++ FY
Sbjct: 26 TPSDDLKSLFAAAWAEDPLTALKILFNL--RDVRGGKGEREGFY 67
>gnl|CDD|213308 cd05943, AACS, Acetoacetyl-CoA synthetase (acetoacetate-CoA
ligase, AACS). AACS is a cytosolic ligase that
specifically activates acetoacetate to its coenzyme A
ester by a two-step reaction. Acetoacetate first reacts
with ATP to form an acyl-adenylate intermediate, which
then reacts with CoA to produce an acyl-CoA ester. This
is the first step of the mevalonate pathway of
isoprenoid biosynthesis via isopentenyl diphosphate.
Isoprenoids are a large class of compounds found in all
living organisms. AACS is widely distributed in
bacteria, archaea and eukaryotes. In bacteria, AACS is
known to exhibit an important role in the metabolism of
poly-b-hydroxybutyrate, an intracellular reserve of
organic carbon and chemical energy by some
microorganisms. In mammals, AACS influences the rate of
ketone body utilization for the formation of
physiologically important fatty acids and cholesterol.
Length = 616
Score = 27.6 bits (62), Expect = 1.0
Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 7/64 (10%)
Query: 24 YQEVYKKSIECPEEFWGQIAKQFHWE-TPIDLDRFHSHNFNISNGPISIKWLEGATTNIC 82
Y +++ S+E FW + W+ + + + + P + +W GA N
Sbjct: 8 YHALWRWSVEDLAAFWESV-----WDFFDVIGSKGYVVVLDGDIMPGA-RWFPGARLNYA 61
Query: 83 YNLL 86
NLL
Sbjct: 62 ENLL 65
>gnl|CDD|233658 TIGR01962, NuoD, NADH dehydrogenase I, D subunit. This model
recognizes specificially the D subunit of NADH
dehydrogenase I complex. It excludes the related chain
of NAD(P)H-quinone oxidoreductases from chloroplast and
Synechocystis, where the quinone may be plastoquinone
rather than ubiquinone. This subunit often appears as a
C/D fusion [Energy metabolism, Electron transport].
Length = 386
Score = 27.3 bits (61), Expect = 1.2
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 53 DLDRFHSHNFNISNGPISIKWLEGATTNICYNLLDRNIRLGLGDKV 98
+L+R SH I + + GA T Y +R L L + +
Sbjct: 99 ELNRISSHLLFIGTHALDL----GAMTPFLYAFREREKILDLFEAI 140
>gnl|CDD|215553 PLN03052, PLN03052, acetate--CoA ligase; Provisional.
Length = 728
Score = 26.6 bits (59), Expect = 2.3
Identities = 18/75 (24%), Positives = 28/75 (37%), Gaps = 11/75 (14%)
Query: 16 SYISTMAKYQEVYKKSIECPEEFWGQIAKQ----FHWETPIDLDRFHSHNFNISNGPISI 71
Y ++ + E + S+E PE +W + + F LD N G
Sbjct: 114 KYKDPISSFSEFQRFSVENPEVYWSIVLDELSLVFSVPPRCILDTSDESN---PGG---- 166
Query: 72 KWLEGATTNICYNLL 86
+WL GA N+ L
Sbjct: 167 QWLPGAVLNVAECCL 181
>gnl|CDD|150568 pfam09910, DUF2139, Uncharacterized protein conserved in archaea
(DUF2139). This domain, found in various hypothetical
archaeal proteins, has no known function.
Length = 339
Score = 25.9 bits (57), Expect = 3.7
Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 9/48 (18%)
Query: 58 HSHNFNISNGPISIKWLEGA---------TTNICYNLLDRNIRLGLGD 96
H H ++ S G + + W E + I YN + L D
Sbjct: 79 HVHEYDTSEGEVRLLWKESIHDPRKWAGEVSEIIYNPYTDTLLLARED 126
>gnl|CDD|233803 TIGR02262, benz_CoA_lig, benzoate-CoA ligase family. Characterized
members of this protein family include benzoate-CoA
ligase, 4-hydroxybenzoate-CoA ligase,
2-aminobenzoate-CoA ligase, etc. Members are related to
fatty acid and acetate CoA ligases.
Length = 508
Score = 25.6 bits (56), Expect = 5.7
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 80 NICYNLLDRNIRLGLGDKVAF 100
N +LLDRN+ G G K AF
Sbjct: 4 NAAEDLLDRNVVEGRGGKTAF 24
>gnl|CDD|235134 PRK03584, PRK03584, acetoacetyl-CoA synthetase; Provisional.
Length = 655
Score = 25.1 bits (56), Expect = 7.0
Identities = 20/82 (24%), Positives = 28/82 (34%), Gaps = 21/82 (25%)
Query: 24 YQEVYKKSIECPEEFWGQIAKQFH--WETP----IDLDRFHSHNFNISNGPISIKWLEGA 77
Y +++ S+E E FW + F TP + R +W GA
Sbjct: 36 YAALWRWSVEDLEAFWQSVWDFFGVIGSTPYTVVLAGRRM-----------PGARWFPGA 84
Query: 78 TTNICYNLLDRNIRLGLGDKVA 99
N NLL R D+ A
Sbjct: 85 RLNYAENLL----RHRRDDRPA 102
>gnl|CDD|226115 COG3587, COG3587, Restriction endonuclease [Defense mechanisms].
Length = 985
Score = 25.1 bits (55), Expect = 9.7
Identities = 10/45 (22%), Positives = 17/45 (37%)
Query: 27 VYKKSIECPEEFWGQIAKQFHWETPIDLDRFHSHNFNISNGPISI 71
V+ S E E F+ + E+ I + F +N P +
Sbjct: 120 VFLTSKETTEHFFKSEYENTRLESYIYDEDIEKFKFKSNNKPCVL 164
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
0.319 0.136 0.437
Gapped
Lambda K H
0.267 0.0829 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,066,910
Number of extensions: 409154
Number of successful extensions: 321
Number of sequences better than 10.0: 1
Number of HSP's gapped: 312
Number of HSP's successfully gapped: 29
Length of query: 102
Length of database: 10,937,602
Length adjustment: 68
Effective length of query: 34
Effective length of database: 7,921,530
Effective search space: 269332020
Effective search space used: 269332020
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 (24.0 bits)