RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11966
(99 letters)
>gnl|CDD|238429 cd00833, PKS, polyketide synthases (PKSs) polymerize simple fatty
acids into a large variety of different products, called
polyketides, by successive decarboxylating Claisen
condensations. PKSs can be divided into 2 groups,
modular type I PKSs consisting of one or more large
multifunctional proteins and iterative type II PKSs,
complexes of several monofunctional subunits.
Length = 421
Score = 96.5 bits (241), Expect = 3e-25
Identities = 40/77 (51%), Positives = 48/77 (62%)
Query: 19 SPIFALAGPCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGVNLTLKPATSLMYHKYN 78
S F L GP T+DTACSS+L LHLA ++ GECD A++GGVNL L P + + K
Sbjct: 154 SYFFDLRGPSLTVDTACSSSLVALHLACQSLRSGECDLALVGGVNLILSPDMFVGFSKAG 213
Query: 79 MLSPTGTISPFDASGVG 95
MLSP G PFDA G
Sbjct: 214 MLSPDGRCRPFDADADG 230
>gnl|CDD|214836 smart00825, PKS_KS, Beta-ketoacyl synthase. The structure of
beta-ketoacyl synthase is similar to that of the
thiolase family and also chalcone synthase. The active
site of beta-ketoacyl synthase is located between the N
and C-terminal domains.
Length = 298
Score = 90.9 bits (227), Expect = 1e-23
Identities = 34/64 (53%), Positives = 41/64 (64%)
Query: 30 TIDTACSSTLFGLHLAVGAIERGECDHAIIGGVNLTLKPATSLMYHKYNMLSPTGTISPF 89
T+DTACSS+L LHLA ++ GECD A+ GGVNL L P T + + MLSP G F
Sbjct: 92 TVDTACSSSLVALHLACQSLRSGECDMALAGGVNLILSPDTFVGLSRAGMLSPDGRCKTF 151
Query: 90 DASG 93
DAS
Sbjct: 152 DASA 155
>gnl|CDD|225858 COG3321, COG3321, Polyketide synthase modules and related proteins
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 1061
Score = 87.5 bits (217), Expect = 1e-21
Identities = 37/77 (48%), Positives = 48/77 (62%)
Query: 19 SPIFALAGPCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGVNLTLKPATSLMYHKYN 78
S + L+GP T+DTACSS+L +HLA ++ GECD A+ GGVNL L P +S ++
Sbjct: 158 SYVLGLSGPSVTVDTACSSSLVAVHLACQSLRLGECDLALAGGVNLVLSPESSYLFSAGG 217
Query: 79 MLSPTGTISPFDASGVG 95
MLSP G FDA G
Sbjct: 218 MLSPDGRCKAFDADADG 234
>gnl|CDD|215723 pfam00109, ketoacyl-synt, Beta-ketoacyl synthase, N-terminal
domain. The structure of beta-ketoacyl synthase is
similar to that of the thiolase family (pfam00108) and
also chalcone synthase. The active site of beta-ketoacyl
synthase is located between the N and C-terminal
domains. The N-terminal domain contains most of the
structures involved in dimer formation and also the
active site cysteine.
Length = 243
Score = 66.1 bits (162), Expect = 1e-14
Identities = 34/76 (44%), Positives = 40/76 (52%), Gaps = 1/76 (1%)
Query: 22 FALAGPCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGVNLTLKPATSLMYHKYN-ML 80
L GP T+DTACSS+L LH AV +I RGECD A+ GGV L P + +L
Sbjct: 151 LGLRGPSVTVDTACSSSLVALHAAVRSIRRGECDLALAGGVEAPLTPGGFAGFSAAGALL 210
Query: 81 SPTGTISPFDASGVGH 96
SP G FD G
Sbjct: 211 SPDGPCKAFDPFADGF 226
>gnl|CDD|238421 cd00825, decarbox_cond_enzymes, decarboxylating condensing enzymes;
Family of enzymes that catalyze the formation of a new
carbon-carbon bond by a decarboxylating Claisen-like
condensation reaction. Members are involved in the
synthesis of fatty acids and polyketides, a diverse
group of natural products. Both pathways are an
iterative series of additions of small carbon units,
usually acetate, to a nascent acyl group. There are 2
classes of decarboxylating condensing enzymes, which can
be distinguished by sequence similarity, type of active
site residues and type of primer units (acetyl CoA or
acyl carrier protein (ACP) linked units).
Length = 332
Score = 49.9 bits (119), Expect = 2e-08
Identities = 22/92 (23%), Positives = 37/92 (40%)
Query: 4 FVLVAPSTPRAAKSNSPIFALAGPCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGVN 63
+V+ P A+ + + GP + AC+ +L L LA A++ G+ D + GG
Sbjct: 65 YVVTKAMFPGASGQIATPLGIHGPAYDVSAACAGSLHALSLAADAVQNGKQDIVLAGGSE 124
Query: 64 LTLKPATSLMYHKYNMLSPTGTISPFDASGVG 95
P + +P FDA+ G
Sbjct: 125 ELAAPMDCEFDAMGALSTPEKASRTFDAAADG 156
>gnl|CDD|223381 COG0304, FabB, 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid
metabolism / Secondary metabolites biosynthesis,
transport, and catabolism].
Length = 412
Score = 44.6 bits (106), Expect = 1e-06
Identities = 23/75 (30%), Positives = 29/75 (38%), Gaps = 5/75 (6%)
Query: 22 FALAGPCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGVNLTLKPATSLMYHKYNMLS 81
F L GP T TAC++ + AV I G+ D I GG + P + LS
Sbjct: 149 FGLKGPNYTPVTACATGAHAIGDAVRLIRLGKADVVIAGGAEAAITPLGIAGFEAMRALS 208
Query: 82 -----PTGTISPFDA 91
P PFD
Sbjct: 209 TRNDDPEKASRPFDK 223
>gnl|CDD|238424 cd00828, elong_cond_enzymes, "elongating" condensing enzymes are a
subclass of decarboxylating condensing enzymes,
including beta-ketoacyl [ACP] synthase, type I and II
and polyketide synthases.They are characterized by the
utlization of acyl carrier protein (ACP) thioesters as
primer substrates, as well as the nature of their active
site residues.
Length = 407
Score = 42.8 bits (101), Expect = 5e-06
Identities = 25/78 (32%), Positives = 32/78 (41%), Gaps = 10/78 (12%)
Query: 25 AGPCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGVNLTLKPATSLMYHKYNM----- 79
GP T AC++ L L LAV AI G+ D ++GGV P + NM
Sbjct: 152 HGPIKTPVGACATALEALDLAVEAIRSGKADIVVVGGVE---DPLEEGLSGFANMGALST 208
Query: 80 --LSPTGTISPFDASGVG 95
P PFD + G
Sbjct: 209 AEEEPEEMSRPFDETRDG 226
>gnl|CDD|236398 PRK09185, PRK09185, 3-oxoacyl-(acyl carrier protein) synthase I;
Reviewed.
Length = 392
Score = 41.4 bits (98), Expect = 1e-05
Identities = 32/78 (41%), Positives = 38/78 (48%), Gaps = 10/78 (12%)
Query: 22 FALAGPCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGVN----LTLKPATSLMYHKY 77
L+GP TI TACSS+ A +E G CD AI+GGV+ LTL SL
Sbjct: 147 LGLSGPAYTISTACSSSAKVFASARRLLEAGLCDAAIVGGVDSLCRLTLNGFNSL----- 201
Query: 78 NMLSPTGTISPFDASGVG 95
LSP PF A+ G
Sbjct: 202 ESLSPQPC-RPFSANRDG 218
>gnl|CDD|238430 cd00834, KAS_I_II, Beta-ketoacyl-acyl carrier protein (ACP)
synthase (KAS), type I and II. KASs are responsible for
the elongation steps in fatty acid biosynthesis. KASIII
catalyses the initial condensation and KAS I and II
catalyze further elongation steps by Claisen
condensation of malonyl-acyl carrier protein (ACP) with
acyl-ACP.
Length = 406
Score = 39.8 bits (94), Expect = 5e-05
Identities = 15/41 (36%), Positives = 18/41 (43%)
Query: 22 FALAGPCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
L GP T+ TAC+S + A I G D I GG
Sbjct: 148 LGLRGPNYTVSTACASGAHAIGDAARLIRLGRADVVIAGGA 188
>gnl|CDD|234022 TIGR02813, omega_3_PfaA, polyketide-type polyunsaturated fatty acid
synthase PfaA. Members of the seed for this alignment
are involved in omega-3 polyunsaturated fatty acid
biosynthesis, such as the protein PfaA from the
eicosapentaenoic acid biosynthesis operon in
Photobacterium profundum strain SS9. PfaA is encoded
together with PfaB, PfaC, and PfaD, and the functions of
the individual polypeptides have not yet been described.
More distant homologs of PfaA, also included with the
reach of this model, appear to be involved in
polyketide-like biosynthetic mechanisms of
polyunsaturated fatty acid biosynthesis, an alternative
to the more familiar iterated mechanism of chain
extension and desaturation, and in most cases are
encoded near genes for homologs of PfaB, PfaC, and/or
PfaD.
Length = 2582
Score = 39.6 bits (92), Expect = 7e-05
Identities = 21/74 (28%), Positives = 32/74 (43%)
Query: 22 FALAGPCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGVNLTLKPATSLMYHKYNMLS 81
F L G C +D AC+ +L + +A+ + G + I GGV P + + K +
Sbjct: 193 FDLGGMNCVVDAACAGSLAAIRMALSELLEGRSEMMITGGVCTDNSPFMYMSFSKTPAFT 252
Query: 82 PTGTISPFDASGVG 95
I PFD G
Sbjct: 253 TNEDIQPFDIDSKG 266
>gnl|CDD|223261 COG0183, PaaJ, Acetyl-CoA acetyltransferase [Lipid metabolism].
Length = 392
Score = 36.9 bits (86), Expect = 5e-04
Identities = 16/36 (44%), Positives = 21/36 (58%)
Query: 27 PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
P T++ AC+S L + LA AI GE D + GGV
Sbjct: 84 PAVTVNRACASGLAAVRLAAQAIASGEADVVLAGGV 119
>gnl|CDD|233642 TIGR01930, AcCoA-C-Actrans, acetyl-CoA acetyltransferases. This
model represents a large family of enzymes which
catalyze the thiolysis of a linear fatty acid CoA (or
acetoacetyl-CoA) using a second CoA molecule to produce
acetyl-CoA and a CoA-ester product two carbons shorter
(or, alternatively, the condensation of two molecules of
acetyl-CoA to produce acetoacetyl-CoA and CoA). This
enzyme is also known as "thiolase", "3-ketoacyl-CoA
thiolase", "beta-ketothiolase" and "Fatty oxidation
complex beta subunit". When catalyzing the degradative
reaction on fatty acids the corresponding EC number is
2.3.1.16. The condensation reaction corresponds to
2.3.1.9. Note that the enzymes which catalyze the
condensation are generally not involved in fatty acid
biosynthesis, which is carried out by a decarboxylating
condensation of acetyl and malonyl esters of acyl
carrier proteins. Rather, this activity may produce
acetoacetyl-CoA for pathways such as IPP biosynthesis in
the absence of sufficient fatty acid oxidation [Fatty
acid and phospholipid metabolism, Other].
Length = 386
Score = 36.1 bits (84), Expect = 0.001
Identities = 14/36 (38%), Positives = 19/36 (52%)
Query: 27 PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
P T++ C+S L + LA I GE D + GGV
Sbjct: 75 PAYTVNRQCASGLQAVILAAQLIRAGEADVVVAGGV 110
>gnl|CDD|238426 cd00830, KAS_III, Ketoacyl-acyl carrier protein synthase III
(KASIII) initiates the elongation in type II fatty acid
synthase systems. It is found in bacteria and plants.
Elongation of fatty acids in the type II systems occurs
by Claisen condensation of malonyl-acyl carrier protein
(ACP) with acyl-ACP. KASIII initiates this process by
specifically using acetyl-CoA over acyl-CoA.
Length = 320
Score = 34.8 bits (81), Expect = 0.003
Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 7/69 (10%)
Query: 4 FVLVAPSTP-RAAKSNSPI--FAL-AGPCCTID--TACSSTLFGLHLAVGAIERGECDHA 57
++VA STP + + + L A D ACS L+GL A G I G +
Sbjct: 74 LIIVATSTPDYLFPATACLVQARLGAKNAAAFDINAACSGFLYGLSTAAGLIRSGGAKNV 133
Query: 58 -IIGGVNLT 65
++G L+
Sbjct: 134 LVVGAETLS 142
>gnl|CDD|223409 COG0332, FabH, 3-oxoacyl-[acyl-carrier-protein].
Length = 323
Score = 34.9 bits (81), Expect = 0.003
Identities = 19/65 (29%), Positives = 28/65 (43%), Gaps = 7/65 (10%)
Query: 4 FVLVAPSTP-RAAKSNSPIFA--L-AGPCCTID--TACSSTLFGLHLAVGAIERGECDHA 57
++VA STP S + + L G D ACS L+ L +A G I G +
Sbjct: 76 LIIVATSTPDHLFPSTACLVQARLGLGGAPAFDLQAACSGFLYALSVADGLIRSGGYKNV 135
Query: 58 -IIGG 61
++G
Sbjct: 136 LVVGA 140
>gnl|CDD|215722 pfam00108, Thiolase_N, Thiolase, N-terminal domain. Thiolase is
reported to be structurally related to beta-ketoacyl
synthase (pfam00109), and also chalcone synthase.
Length = 262
Score = 34.2 bits (79), Expect = 0.004
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 27 PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
P TI+ C S L + LA AI G+ D + GGV
Sbjct: 78 PAVTINKVCGSGLKAVALAAQAIRAGDADIVVAGGV 113
>gnl|CDD|238425 cd00829, SCP-x_thiolase, Thiolase domain associated with sterol
carrier protein (SCP)-x isoform and related proteins;
SCP-2 has multiple roles in intracellular lipid
circulation and metabolism. The N-terminal presequence
in the SCP-x isoform represents a peroxisomal
3-ketacyl-Coa thiolase specific for branched-chain acyl
CoAs, which is proteolytically cleaved from the sterol
carrier protein.
Length = 375
Score = 33.8 bits (78), Expect = 0.007
Identities = 8/33 (24%), Positives = 14/33 (42%)
Query: 31 IDTACSSTLFGLHLAVGAIERGECDHAIIGGVN 63
++ A +S + A AI G D ++ G
Sbjct: 73 VEAAGASGSAAVRAAAAAIASGLADVVLVVGAE 105
>gnl|CDD|238201 cd00327, cond_enzymes, Condensing enzymes; Family of enzymes that
catalyze a (decarboxylating or non-decarboxylating)
Claisen-like condensation reaction. Members are share
strong structural similarity, and are involved in the
synthesis and degradation of fatty acids, and the
production of polyketides, a diverse group of natural
products.
Length = 254
Score = 33.6 bits (77), Expect = 0.009
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 26 GPCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGVNL 64
GP +++ AC++ L L LAV ++ G+ D + GG
Sbjct: 59 GPAYSVNQACATGLTALALAVQQVQNGKADIVLAGGSEE 97
>gnl|CDD|168156 PRK05656, PRK05656, acetyl-CoA acetyltransferase; Provisional.
Length = 393
Score = 33.3 bits (76), Expect = 0.010
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 27 PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV-NLTLKP 68
P T++ C S L LHLA AI G+ + I GG N++L P
Sbjct: 80 PAMTLNKVCGSGLKALHLAAQAIRCGDAEVIIAGGQENMSLAP 122
>gnl|CDD|238383 cd00751, thiolase, Thiolase are ubiquitous enzymes that catalyze
the reversible thiolytic cleavage of 3-ketoacyl-CoA into
acyl-CoA and acetyl-CoA, a 2-step reaction involving a
covalent intermediate formed with a catalytic cysteine.
They are found in prokaryotes and eukaryotes (cytosol,
microbodies and mitochondria). There are 2 functional
different classes: thiolase-I (3-ketoacyl-CoA thiolase)
and thiolase-II (acetoacetyl-CoA thiolase). Thiolase-I
can cleave longer fatty acid molecules and plays an
important role in the beta-oxidative degradation of
fatty acids. Thiolase-II has a high substrate
specificity. Although it can cleave acetoacyl-CoA, its
main function is the synthesis of acetoacyl-CoA from two
molecules of acetyl-CoA, which gives it importance in
several biosynthetic pathways.
Length = 386
Score = 33.2 bits (77), Expect = 0.012
Identities = 14/36 (38%), Positives = 19/36 (52%)
Query: 27 PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
P T++ C S L + LA +I GE D + GGV
Sbjct: 76 PATTVNRVCGSGLQAVALAAQSIAAGEADVVVAGGV 111
>gnl|CDD|235817 PRK06501, PRK06501, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 425
Score = 32.7 bits (75), Expect = 0.016
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 30 TIDTACSSTLFGLHLAVGAIERGECDHAI 58
++ TAC+S + L V AI RGE D A+
Sbjct: 170 SLSTACASGATAIQLGVEAIRRGETDRAL 198
>gnl|CDD|236037 PRK07515, PRK07515, 3-oxoacyl-(acyl carrier protein) synthase III;
Reviewed.
Length = 372
Score = 32.5 bits (75), Expect = 0.021
Identities = 10/19 (52%), Positives = 11/19 (57%)
Query: 34 ACSSTLFGLHLAVGAIERG 52
ACSS FG+ A AI G
Sbjct: 154 ACSSATFGIQTAANAIRSG 172
>gnl|CDD|200247 TIGR03150, fabF, beta-ketoacyl-acyl-carrier-protein synthase II.
3-oxoacyl-[acyl-carrier-protein] synthase 2 (KAS-II,
FabF) is involved in the condensation step of fatty acid
biosynthesis in which the malonyl donor group is
decarboxylated and the resulting carbanion used to
attack and extend the acyl group attached to the acyl
carrier protein. Most genomes encoding fatty acid
biosynthesis contain a number of condensing enzymes,
often of all three types: 1, 2 and 3. Synthase 2 is
mechanistically related to synthase 1 (KAS-I, FabB)
containing a number of absolutely conserved catalytic
residues in common. This model is based primarily on
genes which are found in apparent operons with other
essential genes of fatty acid biosynthesis
(GenProp0681). The large gap between the trusted cutoff
and the noise cutoff contains many genes which are not
found adjacent to genes of the fatty acid pathway in
genomes that often also contain a better hit to this
model. These genes may be involved in other processes
such as polyketide biosyntheses. Some genomes contain
more than one above-trusted hit to this model which may
result from recent paralogous expansions. Second hits to
this model which are not next to other fatty acid
biosynthesis genes may be involved in other processes.
FabB sequences should fall well below the noise cutoff
of this model [Fatty acid and phospholipid metabolism,
Biosynthesis].
Length = 407
Score = 32.1 bits (74), Expect = 0.025
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 6/43 (13%)
Query: 22 FALAGPCCTIDTACSSTLFGLH---LAVGAIERGECDHAIIGG 61
+ GP + TAC++ G H A I+RG+ D I GG
Sbjct: 148 YGAKGPNHAVVTACAT---GTHAIGDAFRLIQRGDADVMIAGG 187
>gnl|CDD|235653 PRK05952, PRK05952, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 381
Score = 31.6 bits (72), Expect = 0.041
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 34 ACSSTLFGLHLAVGAIERGECDHAIIGGVNLTLKPATSLMYHKYNMLSPTGTISPFD 90
AC++ L+ + V I+ G+C I G V + P T + + L+ TG PFD
Sbjct: 145 ACATGLWAIAQGVELIQTGQCQRVIAGAVEAPITPLTLAGFQQMGALAKTGAY-PFD 200
>gnl|CDD|203976 pfam08545, ACP_syn_III, 3-Oxoacyl-[acyl-carrier-protein (ACP)]
synthase III. This domain is found on
3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III
EC:2.3.1.180, the enzyme responsible for initiating the
chain of reactions of the fatty acid synthase in plants
and bacteria.
Length = 80
Score = 30.2 bits (69), Expect = 0.053
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 31 IDTACSSTLFGLHLAVGAIERGECDHA-IIGG 61
I+ ACS ++ L A I G + ++G
Sbjct: 3 INAACSGFVYALSTAAALIRSGRAKNVLVVGA 34
>gnl|CDD|235987 PRK07314, PRK07314, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 411
Score = 30.9 bits (71), Expect = 0.064
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 22 FALAGPCCTIDTACSSTLFGLHLAVG----AIERGECDHAIIGGV 62
+ GP +I TAC++ G H A+G I G+ D + GG
Sbjct: 149 YGAKGPNHSIVTACAT---GAH-AIGDAARLIAYGDADVMVAGGA 189
>gnl|CDD|146574 pfam04013, Methyltrn_RNA_2, Putative SAM-dependent RNA
methyltransferase. This family is likely to be an
S-adenosyl-L-methionine (SAM)-dependent RNA
methyltransferase.
Length = 199
Score = 30.9 bits (70), Expect = 0.068
Identities = 11/47 (23%), Positives = 17/47 (36%), Gaps = 2/47 (4%)
Query: 1 MTQFVLVAPSTPRAAKSNSPIFALAGPCCTIDTACSSTLFGLHLAVG 47
M F++ A P S+ + L G +D C L L+
Sbjct: 1 MRVFIVKANKAPTD--SDFSLKDLPGTSGRLDVLCRCVNAALFLSHS 45
>gnl|CDD|180563 PRK06445, PRK06445, acetyl-CoA acetyltransferase; Provisional.
Length = 394
Score = 30.5 bits (69), Expect = 0.090
Identities = 19/72 (26%), Positives = 30/72 (41%), Gaps = 16/72 (22%)
Query: 27 PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV----------NLTLKPATSLM--- 73
P +D C+S+L + + I G D I GGV N ++P L+
Sbjct: 87 PAMAVDRQCASSLTTVSIGAMEIATGMADIVIAGGVEHMTRTPMGDNPHIEPNPKLLTDP 146
Query: 74 -YHKYNMLSPTG 84
Y +Y++ TG
Sbjct: 147 KYIEYDL--TTG 156
>gnl|CDD|224813 COG1901, COG1901, Uncharacterized conserved protein [Function
unknown].
Length = 197
Score = 30.0 bits (68), Expect = 0.12
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 2/47 (4%)
Query: 1 MTQFVLVAPSTPRAAKSNSPIFALAGPCCTIDTACSSTLFGLHLAVG 47
M +F++ A P + + L G +D C L L+ G
Sbjct: 1 MREFIVKANKAPTD--GDFSLKDLPGSSGRLDVLCRCVSSALFLSHG 45
>gnl|CDD|151282 pfam10833, DUF2572, Protein of unknown function (DUF2572). This
bacterial family of proteins has no known function.
Length = 221
Score = 30.2 bits (68), Expect = 0.12
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 51 RGECDHAIIGGVNLTLKPATSLMYHKYNM 79
+G +I G LTL+P L Y K +
Sbjct: 171 KGRIRGTVITGGPLTLEPGVQLSYRKATV 199
>gnl|CDD|181592 PRK08947, fadA, 3-ketoacyl-CoA thiolase; Reviewed.
Length = 387
Score = 29.9 bits (68), Expect = 0.13
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 27 PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
P T++ C S++ LH A AI G+ D +IGGV
Sbjct: 83 PAVTVNRLCGSSMQALHDAARAIMTGDGDVFLIGGV 118
>gnl|CDD|215421 PLN02787, PLN02787, 3-oxoacyl-[acyl-carrier-protein] synthase II.
Length = 540
Score = 29.9 bits (67), Expect = 0.17
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 26 GPCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGVNLTLKP 68
GP +I TAC+++ F + A I RGE D + GG + + P
Sbjct: 282 GPNYSISTACATSNFCILNAANHIIRGEADVMLCGGSDAAIIP 324
>gnl|CDD|237245 PRK12879, PRK12879, 3-oxoacyl-(acyl carrier protein) synthase III;
Reviewed.
Length = 325
Score = 29.4 bits (67), Expect = 0.20
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 31 IDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
I+ AC+ L+GL A G I G ++ G
Sbjct: 110 INAACAGFLYGLETANGLITSGLYKKVLVIGA 141
>gnl|CDD|181123 PRK07801, PRK07801, acetyl-CoA acetyltransferase; Provisional.
Length = 382
Score = 29.3 bits (66), Expect = 0.29
Identities = 25/73 (34%), Positives = 33/73 (45%), Gaps = 6/73 (8%)
Query: 27 PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV-NLTLKPATSLMYHKYNMLSPTGT 85
P T+D C S+ +H A A+ G D + GGV N++ P +S M G
Sbjct: 81 PGVTVDRQCGSSQQAIHFAAQAVMSGTQDLVVAGGVQNMSQIPISSAM----TAGEQLGF 136
Query: 86 ISPFDAS-GVGHR 97
SPF S G HR
Sbjct: 137 TSPFAESKGWLHR 149
>gnl|CDD|181146 PRK07851, PRK07851, acetyl-CoA acetyltransferase; Provisional.
Length = 406
Score = 28.8 bits (65), Expect = 0.35
Identities = 15/36 (41%), Positives = 20/36 (55%)
Query: 27 PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
P T++ CSS+L +A AI+ GE D I GV
Sbjct: 82 PGTTVNRYCSSSLQTTRMAFHAIKAGEGDVFISAGV 117
>gnl|CDD|131483 TIGR02430, pcaF, 3-oxoadipyl-CoA thiolase. Members of this family
are designated beta-ketoadipyl CoA thiolase, an enzyme
that acts at the end of pathways for the degradation of
protocatechuate (from benzoate and related compounds)
and of phenylacetic acid.
Length = 400
Score = 29.0 bits (65), Expect = 0.39
Identities = 18/44 (40%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 24 LAG-----PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
LAG P T++ C S L + +A AI+ GE D I GGV
Sbjct: 73 LAGLPVSVPGTTVNRLCGSGLDAIGMAARAIKAGEADLLIAGGV 116
>gnl|CDD|181624 PRK09050, PRK09050, beta-ketoadipyl CoA thiolase; Validated.
Length = 401
Score = 28.4 bits (64), Expect = 0.47
Identities = 17/44 (38%), Positives = 22/44 (50%), Gaps = 5/44 (11%)
Query: 24 LAG-----PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
LAG P TI+ C S + + A AI+ GE + I GGV
Sbjct: 74 LAGLPVSVPGTTINRLCGSGMDAVGTAARAIKAGEAELMIAGGV 117
>gnl|CDD|131498 TIGR02445, fadA, fatty oxidation complex, beta subunit FadA. This
subunit of the FadBA complex has acetyl-CoA
C-acyltransferase (EC 2.3.1.16) activity, and is also
known as beta-ketothiolase and fatty oxidation complex,
beta subunit. This protein is almost always located
adjacent to FadB (TIGR02437). The FadBA complex is the
major complex active for beta-oxidation of fatty acids
in E. coli [Fatty acid and phospholipid metabolism,
Degradation].
Length = 385
Score = 28.0 bits (62), Expect = 0.72
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 27 PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
T++ C S++ LH A AI G+ D ++GGV
Sbjct: 81 AAVTVNRLCGSSMQALHDAARAIMTGDADVCLVGGV 116
>gnl|CDD|235688 PRK06064, PRK06064, acetyl-CoA acetyltransferase; Provisional.
Length = 389
Score = 27.2 bits (61), Expect = 1.4
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 27 PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
P ++ AC+S L A A+ GE D + GV
Sbjct: 77 PATRVEAACASGGAALRQAYLAVASGEADVVLAAGV 112
>gnl|CDD|183998 PRK13359, PRK13359, beta-ketoadipyl CoA thiolase; Provisional.
Length = 400
Score = 27.0 bits (60), Expect = 1.6
Identities = 17/44 (38%), Positives = 22/44 (50%), Gaps = 5/44 (11%)
Query: 24 LAG-----PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
LAG P TI+ C S + + +A AI+ GE I GGV
Sbjct: 74 LAGLPHGVPGSTINRLCGSGMDAVGVAARAIKSGEAALMIAGGV 117
>gnl|CDD|235781 PRK06333, PRK06333, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 424
Score = 26.9 bits (60), Expect = 1.7
Identities = 13/41 (31%), Positives = 19/41 (46%)
Query: 22 FALAGPCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
+ GP TAC++ + + A I GE D A+ GG
Sbjct: 160 YGFKGPLGAPVTACAAGVQAIGDAARLIRSGEADVAVCGGT 200
>gnl|CDD|180595 PRK06504, PRK06504, acetyl-CoA acetyltransferase; Provisional.
Length = 390
Score = 27.0 bits (60), Expect = 1.8
Identities = 14/36 (38%), Positives = 17/36 (47%)
Query: 27 PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
P +ID C S+ LH A A+ G D I GV
Sbjct: 81 PGTSIDRQCGSSQQALHFAAQAVMSGTMDIVIAAGV 116
>gnl|CDD|181145 PRK07850, PRK07850, acetyl-CoA acetyltransferase; Provisional.
Length = 387
Score = 26.2 bits (58), Expect = 3.0
Identities = 14/35 (40%), Positives = 14/35 (40%)
Query: 28 CCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
TID C S HL G I G D I GV
Sbjct: 82 ATTIDCQCGSAQQANHLVAGLIAAGAIDVGIACGV 116
>gnl|CDD|181539 PRK08722, PRK08722, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 414
Score = 26.1 bits (57), Expect = 3.1
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 24 LAGPCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGG 61
L GP I TAC++ L + A I G+ D + GG
Sbjct: 153 LRGPNIAISTACTTGLHNIGHAARMIAYGDADAMVAGG 190
>gnl|CDD|236475 PRK09352, PRK09352, 3-oxoacyl-(acyl carrier protein) synthase III;
Reviewed.
Length = 319
Score = 26.2 bits (59), Expect = 3.2
Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 31 IDTACSSTLFGLHLAVGAIERGECDHA-IIG 60
+ ACS ++ L A I G + +IG
Sbjct: 109 LSAACSGFVYALSTADQFIRSGAYKNVLVIG 139
>gnl|CDD|188067 TIGR00590, pcna, proliferating cell nuclear antigen (pcna). All
proteins in this family for which functions are known
form sliding DNA clamps that are used in DNA
replication processes. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 259
Score = 26.2 bits (58), Expect = 3.5
Identities = 10/27 (37%), Positives = 12/27 (44%)
Query: 39 LFGLHLAVGAIERGECDHAIIGGVNLT 65
L L L + CD + GVNLT
Sbjct: 47 LVSLTLRSEGFDTYRCDRNLALGVNLT 73
>gnl|CDD|181626 PRK09052, PRK09052, acetyl-CoA acetyltransferase; Provisional.
Length = 399
Score = 25.3 bits (56), Expect = 5.9
Identities = 15/44 (34%), Positives = 20/44 (45%), Gaps = 5/44 (11%)
Query: 24 LAG-----PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
LAG T++ C+S L + +A I GE D I GV
Sbjct: 79 LAGLPNSVGGVTVNRFCASGLQAVAMAADRIRVGEADVMIAAGV 122
>gnl|CDD|219962 pfam08668, HDOD, HDOD domain.
Length = 195
Score = 25.3 bits (56), Expect = 6.5
Identities = 5/17 (29%), Positives = 8/17 (47%)
Query: 18 NSPIFALAGPCCTIDTA 34
NS + P +I+ A
Sbjct: 44 NSAYYGFRRPISSIEQA 60
>gnl|CDD|181072 PRK07661, PRK07661, acetyl-CoA acetyltransferase; Provisional.
Length = 391
Score = 25.1 bits (55), Expect = 6.9
Identities = 17/47 (36%), Positives = 20/47 (42%), Gaps = 5/47 (10%)
Query: 21 IFALAG-----PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGGV 62
I ALAG P TI+ CSS L + I G + I GG
Sbjct: 71 IGALAGLPYTVPAITINRYCSSGLQSIAYGAERIMLGHSEAVIAGGA 117
>gnl|CDD|215347 PLN02644, PLN02644, acetyl-CoA C-acetyltransferase.
Length = 394
Score = 25.1 bits (55), Expect = 7.9
Identities = 11/35 (31%), Positives = 19/35 (54%)
Query: 27 PCCTIDTACSSTLFGLHLAVGAIERGECDHAIIGG 61
C T++ C+S + + LA +I+ G D + GG
Sbjct: 79 ICTTVNKVCASGMKAVMLAAQSIQLGINDVVVAGG 113
>gnl|CDD|180434 PRK06158, PRK06158, thiolase; Provisional.
Length = 384
Score = 25.0 bits (55), Expect = 8.0
Identities = 16/55 (29%), Positives = 20/55 (36%), Gaps = 8/55 (14%)
Query: 36 SSTLFGLHLAVGAIERGECDHAII--------GGVNLTLKPATSLMYHKYNMLSP 82
SS L L A A+E G CD A+I G L Y ++P
Sbjct: 86 SSFLAHLLPAALALEAGLCDVALICYGSNQRSAGGKLRSMLDPQPYEAPYKPVNP 140
>gnl|CDD|225959 COG3425, PksG, 3-hydroxy-3-methylglutaryl CoA synthase [Lipid
metabolism].
Length = 377
Score = 25.0 bits (55), Expect = 8.2
Identities = 19/65 (29%), Positives = 27/65 (41%), Gaps = 8/65 (12%)
Query: 5 VLVAPST-PRAAKSNSPIFALA---GP-CCTIDT--ACSSTLFGLHLAVGAIERGECDHA 57
V+V + P A K + I A A P D AC + L A+G +E G +
Sbjct: 76 VIVGSESGPDAVKPTATIVAEALGLNPSARAADVEFACYAGTAALQAAIGWVESGMISYG 135
Query: 58 I-IGG 61
+ IG
Sbjct: 136 LVIGA 140
>gnl|CDD|173856 cd08491, PBP2_NikA_DppA_OppA_like_12, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. 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. 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 = 473
Score = 25.0 bits (55), Expect = 9.0
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 1 MTQFVLVAPSTPRAAKSNSPI 21
++ +V+P+TP K PI
Sbjct: 133 LSYVDVVSPNTPTDKKVRDPI 153
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
0.321 0.134 0.415
Gapped
Lambda K H
0.267 0.0940 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,829,238
Number of extensions: 384151
Number of successful extensions: 326
Number of sequences better than 10.0: 1
Number of HSP's gapped: 324
Number of HSP's successfully gapped: 58
Length of query: 99
Length of database: 10,937,602
Length adjustment: 65
Effective length of query: 34
Effective length of database: 8,054,592
Effective search space: 273856128
Effective search space used: 273856128
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 (21.9 bits)
S2: 53 (23.8 bits)