RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4744
(270 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 = 168 bits (427), Expect = 1e-49
Identities = 85/245 (34%), Positives = 125/245 (51%), Gaps = 12/245 (4%)
Query: 30 ITKFDQTFFSLHSRLANVLDPLVRCFIEPCFEAILDAGINPKSLAGSNSSVYTNSCISD- 88
+ FD FF + R A +DP R +E +EA+ DAG +P+SLAGS + V+ + SD
Sbjct: 66 VDAFDAAFFGISPREAEAMDPQQRLLLEVAWEALEDAGYSPESLAGSRTGVFVGASSSDY 125
Query: 89 DESLGCDERLTTNFWLLAHVRCLLANRIAYLFDLKGPSFTIDNSWTGGIEVLRQAVQDIS 148
E L D + R LANRI+Y FDL+GPS T+D + + + L A Q +
Sbjct: 126 LELLARDPDEIDAYAATGTSRAFLANRISYFFDLRGPSLTVDTACSSSLVALHLACQSLR 185
Query: 149 EGRVDTAIVGVSNLLLNANLNSLFQGLNRLSPDGKTRSFDHLANGYARSEGIVVLLLQRS 208
G D A+VG NL+L+ ++ F LSPDG+ R FD A+GY R EG+ V++L+R
Sbjct: 186 SGECDLALVGGVNLILSPDMFVGFSKAGMLSPDGRCRPFDADADGYVRGEGVGVVVLKRL 245
Query: 209 ETALRS----YGEVLHAESRFYG---SLERPFVGFNQASLVEFFTNFYQKARVNPGQVDF 261
ALR Y + + G + P + + Y +A V+P +D+
Sbjct: 246 SDALRDGDRIYAVIRGSAVNQDGRTKGITAP----SGEAQAALIRRAYARAGVDPSDIDY 301
Query: 262 LEADG 266
+EA G
Sbjct: 302 VEAHG 306
>gnl|CDD|225858 COG3321, COG3321, Polyketide synthase modules and related proteins
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 1061
Score = 141 bits (356), Expect = 8e-38
Identities = 76/251 (30%), Positives = 119/251 (47%), Gaps = 14/251 (5%)
Query: 27 LQTITKFDQTFFSLHSRLANVLDPLVRCFIEPCFEAILDAGINPKSLAGSNSSVYTNSCI 86
L + FD FF + R A +DP R +E +EA+ DAGI P SL GS + V+ + +
Sbjct: 67 LDDVDDFDALFFGISPREAEAMDPQQRLLLEVAWEALEDAGIYPDSLRGSATGVFAGASV 126
Query: 87 SD--DESLGCDERLTTNFWLLAHVRCLLANRIAYLFDLKGPSFTIDNSWTGGIEVLRQAV 144
+D L DE + + + + A RI+Y+ L GPS T+D + + + + A
Sbjct: 127 ADYLLLLLADDEAEPE-YAITGNSSSVAAGRISYVLGLSGPSVTVDTACSSSLVAVHLAC 185
Query: 145 QDISEGRVDTAIVGVSNLLLNANLNSLFQGLNRLSPDGKTRSFDHLANGYARSEGIVVLL 204
Q + G D A+ G NL+L+ + LF LSPDG+ ++FD A+GY R EG V++
Sbjct: 186 QSLRLGECDLALAGGVNLVLSPESSYLFSAGGMLSPDGRCKAFDADADGYVRGEGAGVVV 245
Query: 205 LQRSETAL----RSYGEV---LHAESRFYGSLERPFVGFNQASLVEFFTNFYQKARVNPG 257
L+R A R Y + + L P N + + A ++P
Sbjct: 246 LKRLSDAERDGDRIYAVIRGSAVNQDGRSNGLTAP----NLEAQADVIREALADAGIDPA 301
Query: 258 QVDFLEADGSA 268
V ++EA G+
Sbjct: 302 TVQYVEAHGTG 312
>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 = 125 bits (315), Expect = 8e-35
Identities = 61/186 (32%), Positives = 90/186 (48%), Gaps = 7/186 (3%)
Query: 33 FDQTFFSLHSRLANVLDPLVRCFIEPCFEAILDAGINPKSLAGSNS-SVYTNSCISDDES 91
FD FF + R A +DP R +E +EA+ DAG++P SL GS+ V+ S D
Sbjct: 58 FDAAFFGISPREAEAMDPQQRLALEAAWEALEDAGLDPASLRGSDRTGVFVGSGSGDYAE 117
Query: 92 L-----GCDERLTTNFWLLAHVRCLLANRIAYLFDLKGPSFTIDNSWTGGIEVLRQAVQD 146
L R + + A + + A RI+Y L+GPS T+D + + + L AV+
Sbjct: 118 LQALDSAGGPRRVSPYLTGAWMPSVAAGRISYRLGLRGPSVTVDTACSSSLVALHAAVRS 177
Query: 147 ISEGRVDTAIVGVSNLLLNANLNSLFQGLNR-LSPDGKTRSFDHLANGYARSEGIVVLLL 205
I G D A+ G L + F LSPDG ++FD A+G+ R EG+ +LL
Sbjct: 178 IRRGECDLALAGGVEAPLTPGGFAGFSAAGALLSPDGPCKAFDPFADGFVRGEGVGAVLL 237
Query: 206 QRSETA 211
+ A
Sbjct: 238 KELSEA 243
>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 = 114 bits (289), Expect = 2e-30
Identities = 59/194 (30%), Positives = 84/194 (43%), Gaps = 44/194 (22%)
Query: 24 ASKLQTITKFDQTFFSLHSRLANVLDPLVRCFIEPCFEAILDAGINPKSLAGSNSSVYTN 83
+ L + FD FF + R A +DP R +E +EA+ DAGI+P+SL GS + V+
Sbjct: 24 LAGLDDVDLFDAAFFGISPREAEAMDPQQRLLLEVAWEALEDAGIDPESLRGSRTGVFVG 83
Query: 84 SCISDDESLGCDERLTTNFWLLAHVRCLLANRIAYLFDLKGPSFTIDN----SWTGGIEV 139
SD Y S T+D S
Sbjct: 84 VSSSD-----------------------------Y-------SVTVDTACSSSLVA---- 103
Query: 140 LRQAVQDISEGRVDTAIVGVSNLLLNANLNSLFQGLNRLSPDGKTRSFDHLANGYARSEG 199
L A Q + G D A+ G NL+L+ + LSPDG+ ++FD A+GY R EG
Sbjct: 104 LHLACQSLRSGECDMALAGGVNLILSPDTFVGLSRAGMLSPDGRCKTFDASADGYVRGEG 163
Query: 200 IVVLLLQRSETALR 213
+ V++L+R ALR
Sbjct: 164 VGVVVLKRLSDALR 177
>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 = 71.9 bits (176), Expect = 2e-14
Identities = 41/219 (18%), Positives = 76/219 (34%), Gaps = 20/219 (9%)
Query: 61 EAILDAGINPKSLAGSNSSVYTNSCISDDESLGCDE---RLTTNFWLLAHVRCLLANRIA 117
AI DAG++ + V + R + + + + +IA
Sbjct: 21 RAIADAGLSREYQKNPIVGVVVGTGGGSPRFQVFGADAMRAVGPYVVTKAMFPGASGQIA 80
Query: 118 YLFDLKGPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVGVSNLLLNANLNSLFQGLNR 177
+ GP++ + + G + L A + G+ D + G S L
Sbjct: 81 TPLGIHGPAYDVSAACAGSLHALSLAADAVQNGKQDIVLAGGSEELAAPMDCEFDAMGAL 140
Query: 178 LSPDGKTRSFDHLANGYARSEGIVVLLLQRSETALRSYGEVLHAESRFYGSLERPFVGFN 237
+P+ +R+FD A+G+ +G L+++ E AL G ++AE +
Sbjct: 141 STPEKASRTFDAAADGFVFGDGAGALVVEELEHALAR-GAHIYAEIVGTA------ATID 193
Query: 238 QASLVEFFTNFYQKARV----------NPGQVDFLEADG 266
A + F + AR +D+L A G
Sbjct: 194 GAGMGAFAPSAEGLARAAKEALAVAGLTVWDIDYLVAHG 232
>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 = 52.8 bits (127), Expect = 5e-08
Identities = 49/175 (28%), Positives = 71/175 (40%), Gaps = 18/175 (10%)
Query: 61 EAILDAGIN-PKSLAGSNSSVYTNSCISDDESLG----CDERLTTNFWLLAHVRCL--LA 113
EA+ DAGI P + S V S + L D R + + +A
Sbjct: 82 EALADAGITDPYEVHPSEVGVVVGSGMGGLRFLRRGGKLDARAVNPYVSPKWMLSPNTVA 141
Query: 114 NRIAYLFDLK-GPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVGVSNLLLNANLNSLF 172
+ L GP T + +E L AV+ I G+ D +VG L L+ F
Sbjct: 142 GWVNILLLSSHGPIKTPVGACATALEALDLAVEAIRSGKADIVVVGGVEDPLEEGLSG-F 200
Query: 173 QGLNRLS-----PDGKTRSFDHLANGYARSEGIVVLLLQRSETAL----RSYGEV 218
+ LS P+ +R FD +G+ +EG VL+L+R+E AL YG V
Sbjct: 201 ANMGALSTAEEEPEEMSRPFDETRDGFVEAEGAGVLVLERAELALARGAPIYGRV 255
>gnl|CDD|223381 COG0304, FabB, 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid
metabolism / Secondary metabolites biosynthesis,
transport, and catabolism].
Length = 412
Score = 46.9 bits (112), Expect = 5e-06
Identities = 45/184 (24%), Positives = 74/184 (40%), Gaps = 24/184 (13%)
Query: 61 EAILDAGINPKSLAGSNSSVYTNSCISDDESL----------GCDERLTTNFWL--LAHV 108
EA+ DAG++ + V S I E + G +R++ L +
Sbjct: 81 EALEDAGLDNELNVDMRVGVAIGSGIGGLEDIEFDLDALLLEGLRKRISPFLVPKMLPN- 139
Query: 109 RCLLANRIAYLFDLKGPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVGVSNLLLNANL 168
L A +A +F LKGP++T + G + AV+ I G+ D I G + +
Sbjct: 140 --LAAGNVAIVFGLKGPNYTPVTACATGAHAIGDAVRLIRLGKADVVIAGGAEAAITPLG 197
Query: 169 NSLFQGLNRLSPDGKT-----RSFDHLANGYARSEGIVVLLLQRSETALRS----YGEVL 219
+ F+ + LS R FD +G+ EG L+L+ E AL Y E++
Sbjct: 198 IAGFEAMRALSTRNDDPEKASRPFDKNRDGFVIGEGAGALVLEELEHALARGAKIYAEIV 257
Query: 220 HAES 223
+
Sbjct: 258 GYGT 261
>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 = 44.8 bits (107), Expect = 2e-05
Identities = 47/177 (26%), Positives = 76/177 (42%), Gaps = 19/177 (10%)
Query: 61 EAILDAGINPKSLAGSNSSVYTNSCISDDESL-GCDERLTTN-------FWLLAHVRCLL 112
EA+ DAG++P+ L V S I ++ L F++ + +
Sbjct: 81 EALADAGLDPEELDPERIGVVIGSGIGGLATIEEAYRALLEKGPRRVSPFFVPMALPNMA 140
Query: 113 ANRIAYLFDLKGPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVGVSNLLLNA-NLNSL 171
A ++A L+GP++T+ + G + A + I GR D I G + L+ L
Sbjct: 141 AGQVAIRLGLRGPNYTVSTACASGAHAIGDAARLIRLGRADVVIAGGAEALITPLTLAG- 199
Query: 172 FQGLNRLS-----PDGKTRSFDHLANGYARSEGIVVLLLQRSETAL----RSYGEVL 219
F L LS P+ +R FD +G+ EG VL+L+ E A + Y E+L
Sbjct: 200 FAALRALSTRNDDPEKASRPFDKDRDGFVLGEGAGVLVLESLEHAKARGAKIYAEIL 256
>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 = 41.1 bits (96), Expect = 5e-04
Identities = 28/103 (27%), Positives = 49/103 (47%)
Query: 111 LLANRIAYLFDLKGPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVGVSNLLLNANLNS 170
+++ RIA FDL G + +D + G + +R A+ ++ EGR + I G + +
Sbjct: 184 VISGRIANRFDLGGMNCVVDAACAGSLAAIRMALSELLEGRSEMMITGGVCTDNSPFMYM 243
Query: 171 LFQGLNRLSPDGKTRSFDHLANGYARSEGIVVLLLQRSETALR 213
F + + + FD + G EGI ++ L+R E A R
Sbjct: 244 SFSKTPAFTTNEDIQPFDIDSKGMMIGEGIGMMALKRLEDAER 286
>gnl|CDD|238428 cd00832, CLF, Chain-length factor (CLF) is a factor required for
polyketide chain initiation of aromatic
antibiotic-producing polyketide synthases (PKSs) of
filamentous bacteria. CLFs have been shown to have
decarboxylase activity towards malonyl-acyl carrier
protein (ACP). CLFs are similar to other elongation
ketosynthase domains, but their active site cysteine is
replaced by a conserved glutamine.
Length = 399
Score = 40.0 bits (94), Expect = 7e-04
Identities = 43/170 (25%), Positives = 66/170 (38%), Gaps = 39/170 (22%)
Query: 121 DLKGPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVG-VSNLL----LNANLNSLFQGL 175
++GPS + GG++ L QA + + G + G V + L A L+S
Sbjct: 149 GMRGPSGVVVAEQAGGLDALAQARRLVRRG-TPLVVSGGVDSALCPWGWVAQLSS----- 202
Query: 176 NRLS----PDGKTRSFDHLANGYARSEGIVVLLLQRSETA----LRSYGEVLHAESRFYG 227
RLS P FD A GY EG +L+L+ + A R YGE+ + F
Sbjct: 203 GRLSTSDDPARAYLPFDAAAAGYVPGEGGAILVLEDAAAARERGARVYGEIAGYAATFDP 262
Query: 228 --------SLERPFVGFNQASLVEFFTNFYQKARVNPGQVDFLEADGSAI 269
L R + +L + A + P VD + AD + +
Sbjct: 263 PPGSGRPPGLARAI----RLALAD--------AGLTPEDVDVVFADAAGV 300
>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 = 39.7 bits (93), Expect = 7e-04
Identities = 31/159 (19%), Positives = 58/159 (36%), Gaps = 38/159 (23%)
Query: 113 ANRIAYLFDLK-GPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVGVSNLLLNANLNSL 171
A ++AY + GP+++++ + G+ L AVQ + G+ D + G S
Sbjct: 47 AGQLAYHLGISGGPAYSVNQACATGLTALALAVQQVQNGKADIVLAGGSEE--------- 97
Query: 172 FQGLNRLSPDGKTRSFDHLANGYARSEGIVVLLLQRSETALRS----YGEVLHAESRFYG 227
+ +G +++ E ALR E++ + F G
Sbjct: 98 ----------------------FVFGDGAAAAVVESEEHALRRGAHPQAEIVSTAATFDG 135
Query: 228 SLERPFVGFNQASLVEFFTNFYQKARVNPGQVDFLEADG 266
+ P V L + A + P +D++EA G
Sbjct: 136 ASMVPAVSGE--GLARAARKALEGAGLTPSDIDYVEAHG 172
>gnl|CDD|217236 pfam02801, Ketoacyl-synt_C, Beta-ketoacyl synthase, C-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.
Length = 119
Score = 35.6 bits (83), Expect = 0.006
Identities = 12/60 (20%), Positives = 20/60 (33%), Gaps = 8/60 (13%)
Query: 215 YGEVLHAESRFYG----SLERPFVGFNQASLVEFFTNFYQKARVNPGQVDFLEADGSAIK 270
Y + + G L P N + A ++P VD++EA G+
Sbjct: 1 YAVIRGSAVNQDGAAHNGLTAP----NGPAQARAIRAALADAGLDPEDVDYVEAHGTGTP 56
>gnl|CDD|240245 PTZ00050, PTZ00050, 3-oxoacyl-acyl carrier protein synthase;
Provisional.
Length = 421
Score = 36.6 bits (85), Expect = 0.012
Identities = 37/123 (30%), Positives = 56/123 (45%), Gaps = 15/123 (12%)
Query: 116 IAYLFDLKGPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVGVSNLLLNANLNSL-FQG 174
+A LKGPS + + G + +A + I G D I G + A++ + F G
Sbjct: 151 VAIKHKLKGPSGSAVTACATGAHCIGEAFRWIKYGEADIMICGGTE----ASITPVSFAG 206
Query: 175 LNRL---------SPDGKTRSFDHLANGYARSEGIVVLLLQRSETALRSYGEVLHAESRF 225
+R+ P +R FD G+ EG +L+L+ E ALR G ++AE R
Sbjct: 207 FSRMRALCTKYNDDPQRASRPFDKDRAGFVMGEGAGILVLEELEHALRR-GAKIYAEIRG 265
Query: 226 YGS 228
YGS
Sbjct: 266 YGS 268
>gnl|CDD|173154 PRK14691, PRK14691, 3-oxoacyl-(acyl carrier protein) synthase II;
Provisional.
Length = 342
Score = 35.9 bits (82), Expect = 0.015
Identities = 31/124 (25%), Positives = 54/124 (43%), Gaps = 7/124 (5%)
Query: 111 LLANRIAYLFDLKGPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVGVSNLLLNANLNS 170
L A ++ KGP + G++ + AV+ I D A+ G + +++ +
Sbjct: 69 LAAGHVSIKHHFKGPIGAPVTACAAGVQAIGDAVRMIRNNEADVALCGGAEAVIDTVSLA 128
Query: 171 LFQGLNRLS------PDGKTRSFDHLANGYARSEGIVVLLLQRSETALRSYGEVLHAESR 224
F LS P+ +R FD +G+ EG +L+++ E AL + L AE
Sbjct: 129 GFAAARALSTHFNSTPEKASRPFDTARDGFVMGEGAGLLIIEELEHALARGAKPL-AEIV 187
Query: 225 FYGS 228
YG+
Sbjct: 188 GYGT 191
>gnl|CDD|236265 PRK08439, PRK08439, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 406
Score = 34.7 bits (80), Expect = 0.036
Identities = 54/228 (23%), Positives = 97/228 (42%), Gaps = 38/228 (16%)
Query: 27 LQTITKFDQTFFSLHSRLA---------NVLDP--------LVRCFIEPCFEAILDAGIN 69
++ IT FD + F + ++A V+DP ++ ++ EA+ DAG
Sbjct: 33 IKKITLFDASDFPV--QIAGEITDFDPTEVMDPKEVKKADRFIQLGLKAAREAMKDAGFL 90
Query: 70 PKSLAGSNSSVYTNSCIS-----DDESLGCDE---RLTTNFWLLAHVRCLLANRIAYLFD 121
P+ L V + S I + S+ C E R + F++ + + +L I+
Sbjct: 91 PEELDAERFGVSSASGIGGLPNIEKNSIICFEKGPRKISPFFIPSALVNMLGGFISIEHG 150
Query: 122 LKGPSFTIDNSWTGGIEVLRQAVQDISEGRVDTA-IVGVSNLLLNANLNSLFQGLNRLS- 179
LKGP+ + + G + +AV+ I G D +VG + + + F + LS
Sbjct: 151 LKGPNLSSVTACAAGTHAIIEAVKTIMLGGADKMLVVGAESAICPVGIGG-FAAMKALST 209
Query: 180 ----PDGKTRSFDHLANGYARSEGIVVLLLQRSETALRS----YGEVL 219
P +R FD +G+ EG L+L+ E+A + Y E++
Sbjct: 210 RNDDPKKASRPFDKDRDGFVMGEGAGALVLEEYESAKKRGAKIYAEII 257
>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 = 34.2 bits (79), Expect = 0.061
Identities = 19/106 (17%), Positives = 32/106 (30%), Gaps = 23/106 (21%)
Query: 57 EPCFEAILDAGINPKSLAGSNSSVYTNSCISDDESLGCDERLTTNFWLLAHVRCLLANRI 116
E A+ DAG+ P + V + + I
Sbjct: 22 EAARAALDDAGLEPADIDA----VVVGNAAGGRF------------------QSFPGALI 59
Query: 117 AYLFDLKG-PSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVGVSN 161
A L G P+ ++ + G +R A I+ G D +V +
Sbjct: 60 AEYLGLLGKPATRVEAAGASGSAAVRAAAAAIASGLADVVLVVGAE 105
>gnl|CDD|236398 PRK09185, PRK09185, 3-oxoacyl-(acyl carrier protein) synthase I;
Reviewed.
Length = 392
Score = 33.7 bits (78), Expect = 0.084
Identities = 34/109 (31%), Positives = 47/109 (43%), Gaps = 5/109 (4%)
Query: 112 LANRIAYLFDLKGPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVGVSNLLLNANLNSL 171
LA+ + L GP++TI + + +V A + + G D AIVG + L LN
Sbjct: 139 LADFLRAYLGLSGPAYTISTACSSSAKVFASARRLLEAGLCDAAIVGGVDSLCRLTLNG- 197
Query: 172 FQGLNRLSPDGKTRSFDHLANGYARSEGIVVLLLQR---SETALRSYGE 217
F L LSP R F +G E LL+R + AL GE
Sbjct: 198 FNSLESLSP-QPCRPFSANRDGINIGEAAAFFLLEREDDAAVALLGVGE 245
>gnl|CDD|235781 PRK06333, PRK06333, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 424
Score = 33.4 bits (77), Expect = 0.10
Identities = 27/111 (24%), Positives = 47/111 (42%), Gaps = 10/111 (9%)
Query: 111 LLANRIAYLFDLKGPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVG--------VSNL 162
+ A ++ + KGP + G++ + A + I G D A+ G VS
Sbjct: 151 MAAGHVSIRYGFKGPLGAPVTACAAGVQAIGDAARLIRSGEADVAVCGGTEAAIDRVSLA 210
Query: 163 LLNANLNSLFQGLNRLSPDGKTRSFDHLANGYARSEGIVVLLLQRSETALR 213
A +L N +P+ +R FD +G+ EG +L+++ E AL
Sbjct: 211 GFAAA-RALSTRFND-APEQASRPFDRDRDGFVMGEGAGILVIETLEHALA 259
>gnl|CDD|180839 PRK07103, PRK07103, polyketide beta-ketoacyl:acyl carrier protein
synthase; Validated.
Length = 410
Score = 31.5 bits (72), Expect = 0.37
Identities = 27/106 (25%), Positives = 44/106 (41%), Gaps = 15/106 (14%)
Query: 119 LFDLKGPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVGVSNLLLNANLNSL-FQGLNR 177
F ++G FT+ + G + QA + + G VD I V L +L+ Q L
Sbjct: 153 QFGIRGEGFTVGGASASGQLAVIQAARLVQSGSVDACIA-VGAL---MDLSYWECQALRS 208
Query: 178 L----------SPDGKTRSFDHLANGYARSEGIVVLLLQRSETALR 213
L P+ R FD +G+ E ++L+ +E+A R
Sbjct: 209 LGAMGSDRFADEPEAACRPFDQDRDGFIYGEACGAVVLESAESARR 254
>gnl|CDD|215449 PLN02836, PLN02836, 3-oxoacyl-[acyl-carrier-protein] synthase.
Length = 437
Score = 30.5 bits (69), Expect = 0.98
Identities = 44/189 (23%), Positives = 80/189 (42%), Gaps = 30/189 (15%)
Query: 61 EAILDAGINPK----------SLAGSNSSVYTNSCISDDESLGCDERL--TTNFWLLAHV 108
EA+ DA P S+ G S+ + I + L C++RL + F++ +
Sbjct: 103 EALSDARWLPSEDEAKERTGVSIGGGIGSI---TDILEAAQLICEKRLRRLSPFFVPRIL 159
Query: 109 RCLLANRIAYLFDLKGPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVGVSNLLLNANL 168
+ A ++ + +GP+ + G + A + I G D + G + +++
Sbjct: 160 INMAAGHVSIRYGFQGPNHAAVTACATGAHSIGDAFRMIQFGDADVMVAGGTE----SSI 215
Query: 169 NSL-FQGLNRL---------SPDGKTRSFDHLANGYARSEGIVVLLLQRSETALRSYGEV 218
++L G +R P +R FD +G+ EG VL+L+ E A + G
Sbjct: 216 DALSIAGFSRSRALSTKFNSCPTEASRPFDCDRDGFVIGEGAGVLVLEELEHA-KRRGAK 274
Query: 219 LHAESRFYG 227
++AE R YG
Sbjct: 275 IYAEVRGYG 283
>gnl|CDD|235281 PRK04328, PRK04328, hypothetical protein; Provisional.
Length = 249
Score = 29.7 bits (67), Expect = 1.4
Identities = 15/29 (51%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 137 IEVLRQAVQDISEGRVDTAIVGVSNLLLN 165
I+VLRQA++DI RV I VS L L
Sbjct: 117 IDVLRQAIKDIGAKRV--VIDSVSTLYLT 143
>gnl|CDD|239172 cd02771, MopB_NDH-1_NuoG2-N7, MopB_NDH-1_NuoG2-N7: The second
domain of the NuoG subunit (with a [4Fe-4S] cluster, N7)
of the NADH-quinone oxidoreductase/NADH dehydrogenase-1
(NDH-1) found in various bacteria. The NDH-1 is the
first energy-transducting complex in the respiratory
chain and functions as a redox pump that uses the redox
energy to translocate H+ ions across the membrane,
resulting in a significant contribution to energy
production. In Escherichia coli NDH-1, the largest
subunit is encoded by the nuoG gene, and is part of the
14 distinct subunits constituting the functional enzyme.
The NuoG subunit is made of two domains: the first
contains three binding sites for FeS clusters (the fer2
domain), the second domain (this CD), is of unknown
function or, as postulated, has lost an ancestral
formate dehydrogenase activity that became redundant
during the evolution of the complex I enzyme. Unique to
this group, compared to the other prokaryotic and
eukaryotic groups in this domain protein family
(NADH-Q-OR-NuoG2), is an N-terminal [4Fe-4S] cluster
(N7/N1c) present in the second domain. Although only
vestigial sequence evidence remains of a molybdopterin
binding site, this protein domain belongs to the
molybdopterin_binding (MopB) superfamily of proteins.
Length = 472
Score = 29.3 bits (66), Expect = 2.6
Identities = 16/75 (21%), Positives = 26/75 (34%), Gaps = 19/75 (25%)
Query: 140 LRQAVQDISEGRVDTAIVGVSNLLLNANLNSLFQGLNRLSPDGKTRSFDHLANGYARSEG 199
L A+ + +G D IV ++L + D +E
Sbjct: 327 LDGALAALEDGSADALIVLGNDLY------------RSAPERRVEAALD-------AAEF 367
Query: 200 IVVLLLQRSETALRS 214
+VVL +ETA R+
Sbjct: 368 VVVLDHFLTETAERA 382
>gnl|CDD|221904 pfam13031, DUF3892, Protein of unknown function (DUF3892). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria and archaea.
Proteins in this family are typically between 87 and 104
amino acids in length.
Length = 73
Score = 26.8 bits (60), Expect = 2.8
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 134 TGGIEVLRQAVQDISEGRVDTAIVGV 159
G + +A+ +I EG I GV
Sbjct: 20 NGEVISKEEAIMEIEEGSFYVLIAGV 45
>gnl|CDD|235819 PRK06519, PRK06519, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 398
Score = 28.8 bits (65), Expect = 3.4
Identities = 26/100 (26%), Positives = 41/100 (41%), Gaps = 19/100 (19%)
Query: 64 LDAGINPKSLAGSNSSVYTNSCISDDESLGCDERLTTN-----FWLLAHVRCLLANRIAY 118
+D I ++ ++ V N ERL T F LA + LLA I+
Sbjct: 115 VDTAILNEARKRNDRGVLLN------------ERLMTELRPTLF--LAQLSNLLAGNISI 160
Query: 119 LFDLKGPSFTIDNSWTGGIEVLRQAVQDISEGRVDTAIVG 158
+ + G S T + G+ + A I+ G+ D A+VG
Sbjct: 161 VHKVTGSSRTFMGEESAGVSAIEIAFARIASGQSDHALVG 200
>gnl|CDD|212683 cd11733, HSPA9-like_NBD, Nucleotide-binding domain of human HSPA9,
Escherichia coli DnaK, and similar proteins. This
subgroup includes human mitochondrial HSPA9 (also known
as 70-kDa heat shock protein 9, CSA; MOT; MOT2; GRP75;
PBP74; GRP-75; HSPA9B; MTHSP75; the gene encoding HSPA9
maps to 5q31.1), Escherichia coli DnaK, and
Saccharomyces cerevisiae Stress-Seventy subfamily
C/Ssc1p (also called mtHSP70, Endonuclease SceI 75 kDa
subunit). It belongs to the heat shock protein 70
(HSP70) family of chaperones that assist in protein
folding and assembly, and can direct incompetent
"client" proteins towards degradation. Typically, HSP70s
have a nucleotide-binding domain (NBD) and a
substrate-binding domain (SBD). The nucleotide sits in a
deep cleft formed between the two lobes of the NBD. The
two subdomains of each lobe change conformation between
ATP-bound, ADP-bound, and nucleotide-free states. ATP
binding opens up the substrate-binding site;
substrate-binding increases the rate of ATP hydrolysis.
Hsp70 chaperone activity is regulated by various
co-chaperones: J-domain proteins and nucleotide exchange
factors (NEFs); for Escherichia coli DnaK, these are the
DnaJ and GrpE, respectively. HSPA9 is involved in
multiple processses including mitochondrial import,
antigen processing, control of cellular proliferation
and differentiation, and regulation of glucose
responses. During glucose deprivation-induced cellular
stress, HSPA9 plays an important role in the suppression
of apoptosis by inhibiting a conformational change in
Bax that allow the release of cytochrome c. DnaK
modulates the heat shock response in Escherichia coli.
It protects E. coli from protein carbonylation, an
irreversible oxidative modification that increases
during organism aging and bacterial growth arrest. Under
severe thermal stress, it functions as part of a
bi-chaperone system: the DnaK system and the
ring-forming AAA+ chaperone ClpB (Hsp104) system, to
promote cell survival. DnaK has also been shown to
cooperate with GroEL and the ribosome-associated
Escherichia coli Trigger Factor in the proper folding of
cytosolic proteins. S. cerevisiae Ssc1p is the major
HSP70 chaperone of the mitochondrial matrix, promoting
translocation of proteins from the cytosol, across the
inner membrane, to the matrix, and their subsequent
folding. Ssc1p interacts with Tim44, a peripheral inner
membrane protein associated with the TIM23 protein
translocase. It is also a subunit of the endoSceI
site-specific endoDNase and is required for full
endoSceI activity. Ssc1p plays roles in the import of
Yfh1p, a nucleus-encoded mitochondrial protein involved
in iron homeostasis (and a homolog of human frataxin,
implicated in the neurodegenerative disease,
Friedreich's ataxia). Ssc1 also participates in
translational regulation of cytochrome c oxidase (COX)
biogenesis by interacting with Mss51 and
Mss51-containing complexes.
Length = 377
Score = 28.5 bits (64), Expect = 3.7
Identities = 9/30 (30%), Positives = 20/30 (66%)
Query: 42 SRLANVLDPLVRCFIEPCFEAILDAGINPK 71
++ +++ L++ IEPC +A+ DAG++
Sbjct: 298 AKFESLVGDLIKRTIEPCKKALKDAGVSKS 327
>gnl|CDD|163589 TIGR03877, thermo_KaiC_1, KaiC domain protein, Ph0284 family.
Members of this family contain a single copy of the KaiC
domain (pfam06745) that occurs in two copies of the
circadian clock protein kinase KaiC itself. Members
occur primarily in thermophilic archaea and in
Thermotoga.
Length = 237
Score = 28.2 bits (63), Expect = 4.4
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 2/29 (6%)
Query: 137 IEVLRQAVQDISEGRVDTAIVGVSNLLLN 165
I+VLRQA++DI+ RV I V+ L +
Sbjct: 115 IDVLRQAIRDINAKRV--VIDSVTTLYIT 141
>gnl|CDD|239870 cd04405, RhoGAP_BRCC3-like, RhoGAP_BRCC3-like: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain of BRCC3-like proteins. This subgroup
also contains two groups of closely related proteins,
BRCC3 and DEPDC7, which both contain a C-terminal
RhoGAP-like domain and an N-terminal DEP (Disheveled,
Egl-10, and Pleckstrin) domain. The function(s) of
BRCC3 and DEPDC7 are unknown. Small GTPases cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when
GDP-bound. The Rho family of GTPases activates effectors
involved in a wide variety of developmental processes,
including regulation of cytoskeleton formation, cell
proliferation and the JNK signaling pathway. GTPases
generally have a low intrinsic GTPase hydrolytic
activity but there are family-specific groups of GAPs
that enhance the rate of GTP hydrolysis by several
orders of magnitude.
Length = 235
Score = 27.7 bits (62), Expect = 5.3
Identities = 18/56 (32%), Positives = 30/56 (53%), Gaps = 3/56 (5%)
Query: 58 PCFEAILD-AGINPKSLA-GSNSSVYTNSCISDDESLGCDERLTTNFWLLAHVRCL 111
P E +LD A +NPK ++ + VYT++ D E + + + WLL+ + CL
Sbjct: 25 PLLEELLDPALVNPKHISYNMDPDVYTSNY-LDREVVKLFSKSQLDHWLLSAMDCL 79
>gnl|CDD|199840 cd03855, M14_ASTE, Peptidase M14 Succinylglutamate desuccinylase
(ASTE) subfamily. Peptidase M14 Succinylglutamate
desuccinylase (ASTE, also known as
N-succinyl-L-glutamate amidohydrolase,
N2-succinylglutamate desuccinylase, and SGDS; EC
3.5.1.96) belongs to the Succinylglutamate desuccinylase
(ASTE)/aspartoacylase (ASPA) subfamily of the M14 family
of metallocarboxypeptidases. This group includes
succinylglutamate desuccinylase that catalyzes the fifth
and last step in arginine catabolism by the arginine
succinyltransferase pathway. It hydrolyzes
N-succinyl-L-glutamate to succinate and L-glutamate.
Length = 321
Score = 27.9 bits (63), Expect = 5.4
Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 10/52 (19%)
Query: 134 TGGIEVLRQAVQDISEGRVDTAIVGVSNLLLNANLNSLFQG-------LNRL 178
T IE+L Q ++D+ G + + L + N ++ G LNRL
Sbjct: 56 TAPIELLNQLIKDLLAGEL---PLAHRLLFILGNPPAIRAGKRFVDENLNRL 104
>gnl|CDD|184425 PRK13965, PRK13965, ribonucleotide-diphosphate reductase subunit
beta; Provisional.
Length = 335
Score = 27.4 bits (61), Expect = 9.3
Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 16/59 (27%)
Query: 86 ISDDESLGCDERLTTNFWLLAHVRCLLANRIAYLFDLKGPSFTIDNSWTGGIEVLRQAV 144
++DD+ L R+T NFWL V ++N + NSW E +Q +
Sbjct: 30 LNDDKDLEVWNRVTQNFWLPEKVP--VSNDL--------------NSWRSLGEDWQQLI 72
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 0.136 0.400
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: 13,606,314
Number of extensions: 1280511
Number of successful extensions: 1076
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1056
Number of HSP's successfully gapped: 36
Length of query: 270
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 175
Effective length of database: 6,723,972
Effective search space: 1176695100
Effective search space used: 1176695100
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: 58 (25.8 bits)