RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780489|ref|YP_003064902.1| 3-oxoacyl-(acyl carrier
protein) synthase II [Candidatus Liberibacter asiaticus str. psy62]
(325 letters)
>gnl|CDD|29417 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 = 304 bits (781), Expect = 2e-83
Identities = 124/310 (40%), Positives = 188/310 (60%), Gaps = 3/310 (0%)
Query: 5 SSCILGFGHAVPNQCIHNSIIERHLNLKLGVIEQKTGIKYRYWAEKHETLTDIAIQAGDI 64
++ ILG G +P + + N +E+ L+ I +TGI+ R A+ ET +D+A++A
Sbjct: 1 NARILGIGSYLPERVVTNDELEKRLDTSDEWIRTRTGIRERRIADPGETTSDLAVEAAKK 60
Query: 65 ALRNANIKKDSISLTLLATSTPDHLLPPSSPLITHRLGLMQSGAIDLTGACAGFLYALVM 124
AL +A I D I L ++ATSTPD+L P ++ L+ RLG + A D+ AC+GFLY L
Sbjct: 61 ALEDAGIDADDIDLIIVATSTPDYLFPATACLVQARLGAKNAAAFDINAACSGFLYGLST 120
Query: 125 ADSYINSHQ-KPVLIIAANLLSRRINLEDKDTAIIFGDAAGAVVLAPSPLKDKSGILGIE 183
A I S K VL++ A LSR ++ D+ TA++FGD AGAVVL + + GIL
Sbjct: 121 AAGLIRSGGAKNVLVVGAETLSRILDWTDRSTAVLFGDGAGAVVLEATE--EDPGILDSV 178
Query: 184 LTSDGSKYDLIKIPTGGSTSPAGTNTHDFYMRITNGADIFYNAVKIMAQSAKQSLRKSDL 243
L SDGS DL+ IP GGS SP + +G ++F AV++M +S +++L K+ L
Sbjct: 179 LGSDGSGADLLTIPAGGSRSPFEDAEGGDPYLVMDGREVFKFAVRLMPESIEEALEKAGL 238
Query: 244 QPQDINRFIPHQANSRIIQKVCEKIGLSKRIMVNSLKDFGNSSSASIPLSLSLENQRKPF 303
P DI+ F+PHQAN RII+ V +++GL + +V +L +GN+S+ASIPL+L +
Sbjct: 239 TPDDIDWFVPHQANLRIIEAVAKRLGLPEEKVVVNLDRYGNTSAASIPLALDEAIEEGKL 298
Query: 304 QKGEKILTIS 313
+KG+ +L +
Sbjct: 299 KKGDLVLLLG 308
>gnl|CDD|30680 COG0332, FabH, 3-oxoacyl-[acyl-carrier-protein].
Length = 323
Score = 286 bits (733), Expect = 6e-78
Identities = 123/304 (40%), Positives = 191/304 (62%), Gaps = 5/304 (1%)
Query: 8 ILGFGHAVPNQCIHNSIIERHLNLKLGVIEQKTGIKYRYWAEKHETLTDIAIQAGDIALR 67
ILG G +P + + N+ +E+ ++ IE +TGI+ R A ET +D+A++A AL
Sbjct: 6 ILGIGSYLPERVVTNADLEKRVDTSDEWIETRTGIRERRIAADDETTSDLAVEAARKALE 65
Query: 68 NANIKKDSISLTLLATSTPDHLLPPSSPLITHRLGLMQSGAIDLTGACAGFLYALVMADS 127
+A I D I L ++ATSTPDHL P ++ L+ RLGL + A DL AC+GFLYAL +AD
Sbjct: 66 DAGISPDDIDLIIVATSTPDHLFPSTACLVQARLGLGGAPAFDLQAACSGFLYALSVADG 125
Query: 128 YINSHQ-KPVLIIAANLLSRRINLEDKDTAIIFGDAAGAVVLAPSPLKDKSGILGIELTS 186
I S K VL++ A LSR ++ D+DT ++FGD AGAVVL + D +GIL +L S
Sbjct: 126 LIRSGGYKNVLVVGAETLSRILDWTDRDTCVLFGDGAGAVVLEATE--DDNGILDTDLGS 183
Query: 187 DGSKYDLIKIPTGGSTSPAGTNTHDFYMRITNGADIFYNAVKIMAQSAKQSLRKSDLQPQ 246
DGS+ DL+ +P GGS + + + +G ++F AV+ M ++ ++ L K+ L P+
Sbjct: 184 DGSQGDLLYLPGGGSAT--PKEESGGGLLVMDGREVFKFAVRAMPKAIEEVLEKAGLTPE 241
Query: 247 DINRFIPHQANSRIIQKVCEKIGLSKRIMVNSLKDFGNSSSASIPLSLSLENQRKPFQKG 306
DI+ F+PHQAN RII+ + +K+G+ + +V ++ +GN+S+ASIPL+L + + G
Sbjct: 242 DIDWFVPHQANLRIIEAIAKKLGIPEEKVVVTVDKYGNTSAASIPLALDEALREGRIKPG 301
Query: 307 EKIL 310
+ +L
Sbjct: 302 DLVL 305
>gnl|CDD|164577 CHL00203, fabH, 3-oxoacyl-acyl-carrier-protein synthase 3;
Provisional.
Length = 326
Score = 175 bits (446), Expect = 1e-44
Identities = 103/313 (32%), Positives = 167/313 (53%), Gaps = 19/313 (6%)
Query: 8 ILGFGHAVPNQCIHNSIIERHLNLKLGVIEQKTGIKYRYWAEKHETLTDIAIQAGDIALR 67
IL G +VPN + N E + I +TGIK R+ A +LT +A +A + AL
Sbjct: 5 ILSTGSSVPNFSVENQQFEDIIETSDHWISTRTGIKKRHLAPSSTSLTKLAAEAANKALD 64
Query: 68 NANIKKDSISLTLLATSTPDHLLPPSSPLITHRLGLMQSGAIDLTGACAGFLYALVMADS 127
A++ I L +LATSTPD L +S L +G ++ A D+T AC+GF+ ALV A
Sbjct: 65 KAHMDPLEIDLIILATSTPDDLFGSASQL-QAEIGATRAVAFDITAACSGFILALVTATQ 123
Query: 128 YI-NSHQKPVLIIAANLLSRRINLEDKDTAIIFGDAAGAVVLAPSPLKDKSGILGIELTS 186
+I N K +L++ A+ LS+ I+ D+ T I+FGD AGA ++ S ++ ILG +L +
Sbjct: 124 FIQNGSYKNILVVGADTLSKWIDWSDRKTCILFGDGAGAAIIGAS---YENSILGFKLCT 180
Query: 187 DGSKYDLIKIPT--------GGSTSPAGTNTHDFYMRIT-NGADIFYNAVKIMAQSAKQS 237
DG +++ G + P G Y I+ NG +++ AV + +
Sbjct: 181 DGKLNSHLQLMNKPVNNQSFGTTKLPQGQ-----YQSISMNGKEVYKFAVFQVPAVIIKC 235
Query: 238 LRKSDLQPQDINRFIPHQANSRIIQKVCEKIGLSKRIMVNSLKDFGNSSSASIPLSLSLE 297
L ++ +++ FI HQAN RI++ + ++ + M+ +L+ +GN+S+ASIPL+L
Sbjct: 236 LNALNISIDEVDWFILHQANKRILEAIANRLSVPNSKMITNLEKYGNTSAASIPLALDEA 295
Query: 298 NQRKPFQKGEKIL 310
Q Q G+ I+
Sbjct: 296 IQNNKIQPGQIIV 308
>gnl|CDD|29414 cd00827, init_cond_enzymes, "initiating" condensing enzymes are a
subclass of decarboxylating condensing enzymes,
including beta-ketoacyl [ACP] synthase, type III and
polyketide synthases, type III, which include chalcone
synthase and related enzymes. They are characterized by
the utlization of CoA substrate primers, as well as the
nature of their active site residues..
Length = 324
Score = 139 bits (351), Expect = 1e-33
Identities = 84/314 (26%), Positives = 142/314 (45%), Gaps = 13/314 (4%)
Query: 8 ILGFGHAVPNQCIHNSIIERHLNLKLGVIEQKTGIKYRYWAEKHETLTDIAIQAGDIALR 67
I G +P + N + L + G TGI R+ A E + +A++A AL
Sbjct: 4 IEAIGAYLPRYRVDNEELAEGLGVDPGKY--TTGIGQRHMAGDDEDVPTMAVEAARRALE 61
Query: 68 NANIKKDSISLTLLATSTPDHLLPPSSPLITHRLGLMQSGAIDLTGACAGFLYALVMADS 127
A I D I L ++AT +P ++ + LGL + A DL AC G AL +A +
Sbjct: 62 RAGIDPDDIGLLIVATESPIDKGKSAATYLAELLGLTNAEAFDLKQACYGGTAALQLAAN 121
Query: 128 YINSHQ-KPVLIIAANLLSRRINLEDKDTAIIFGDAAGAVVLAPSPLKDKSGILGIELTS 186
+ S + L++A+++ + + E GD A A++++ +P +GI+ TS
Sbjct: 122 LVESGPWRYALVVASDI-ASYLLDEGSALEPTLGDGAAAMLVSRNPGILAAGIVSTHSTS 180
Query: 187 DGSKYDLI-KIPTGGSTSPAGTNTHDFYMRITNGADIFYNAVKIMAQSAKQSLRKSDLQP 245
D + GG P G +F A K++A+ +++L ++ L
Sbjct: 181 DPGYDFSPYPVMDGGYPKPCKLAYAIRLTAEPAGRAVFEAAHKLIAKVVRKALDRAGLS- 239
Query: 246 QDINRFIPHQAN-SRIIQKVCEKIGLSKRIMVNSLKDF----GNSSSASIPLSL-SLENQ 299
+DI+ F+PHQ N +I++ V +K+G + GN +ASI L L SL
Sbjct: 240 EDIDYFVPHQPNGKKILEAVAKKLGGPPEKASQTRWILLRRVGNMYAASILLGLASLLES 299
Query: 300 RKPFQKGEKILTIS 313
K + G+++L S
Sbjct: 300 GKL-KAGDRVLLFS 312
>gnl|CDD|33231 COG3425, PksG, 3-hydroxy-3-methylglutaryl CoA synthase [Lipid
metabolism].
Length = 377
Score = 89.2 bits (221), Expect = 1e-18
Identities = 69/331 (20%), Positives = 132/331 (39%), Gaps = 40/331 (12%)
Query: 8 ILGFGHAVPNQCIHNSIIERHLNLKLGVIEQKTGIKYRYWAEKHETLTDIAIQAGDIALR 67
I+G G +P I + R + I++ G++ + E +A++A AL+
Sbjct: 5 IVGIGAYIPRYRIKLEELARAWGVDPEKIKKGLGVEEKSVPPWDEDAVTMAVEAARNALK 64
Query: 68 NANIKKDSISLTLLATSTPDHLLPPSSPLITHRLGLMQSG-AIDLTGACAGFLYALVMAD 126
A+I I ++ + + + P++ ++ LGL S A D+ AC AL A
Sbjct: 65 RADIDPSKIGAVIVGSESGPDAVKPTATIVAEALGLNPSARAADVEFACYAGTAALQAAI 124
Query: 127 SYINSHQ-KPVLIIAANLLSRRINLEDKDTAIIFGDAAGAVVLAPSPLKDKSGILGIELT 185
++ S L+I A+ + TA G A A ++ +P
Sbjct: 125 GWVESGMISYGLVIGADTAQYAPGDALEYTA---GAGAVAFLIGKNP------------- 168
Query: 186 SDGSKYDLIKIPTGGSTSPAGTNTHDFYMRI------TNGADIFYNAVKIMAQSAKQSLR 239
++ G + T+T DF+ +G K + +AK +
Sbjct: 169 ------PIVAEFEGTGSY--TTDTPDFWRPDGQPYPYVDGRFSEPAYFKHVENAAKGYME 220
Query: 240 KSDLQPQDINRFIPHQANSRIIQKVCEKIG-LSKRIM--VNSLKDFGNSSSASIPLSLS- 295
K+ L P D + + HQ N + +K + +G +++ + + GN+ + S+ L L+
Sbjct: 221 KTGLSPDDFDYIVFHQPNGKFPKKAAKSLGFKEEQVKPGLVYPQRIGNTYTGSLLLGLAS 280
Query: 296 -LENQRKPFQKGEKILTISCRRGNDRGIYCL 325
L+N + P G++IL S G + +
Sbjct: 281 LLDNAKLP---GDRILLFSYGSGAGSEAFSI 308
>gnl|CDD|73238 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 = 76.3 bits (187), Expect = 1e-14
Identities = 56/234 (23%), Positives = 91/234 (38%), Gaps = 60/234 (25%)
Query: 91 PPSSPLITHRLGLMQSGAIDLTGACAGFLYALVMADSYI-NSHQKPVLIIAANLLSRRIN 149
P +S I LG+ A D++ ACAG L+AL +A + N Q VL + L+ ++
Sbjct: 73 PGASGQIATPLGI-HGPAYDVSAACAGSLHALSLAADAVQNGKQDIVLAGGSEELAAPMD 131
Query: 150 LE------------------DKDTAIIFGDAAGAVVLAPSPLKDKSG------ILGIELT 185
E +FGD AGA+V+ G I+G T
Sbjct: 132 CEFDAMGALSTPEKASRTFDAAADGFVFGDGAGALVVEELEHALARGAHIYAEIVGTAAT 191
Query: 186 SDGSKYDLIKIPTGGSTSPAGTNTHDFYMRITNGADIFYNAVKIMAQSAKQSLRKSDLQP 245
DG+ G+ +P+ +A++AK++L + L
Sbjct: 192 IDGA--------GMGAFAPSAEG---------------------LARAAKEALAVAGLTV 222
Query: 246 QDINRFIPHQANSRIIQKVCEKIGLS----KRIMVNSLK-DFGNSSSASIPLSL 294
DI+ + H + I K+ S K V++ K GN SSA++ L++
Sbjct: 223 WDIDYLVAHGTGTPIGDVKELKLLRSEFGDKSPAVSATKAMTGNLSSAAVVLAV 276
>gnl|CDD|73194 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 = 70.4 bits (172), Expect = 7e-13
Identities = 42/236 (17%), Positives = 77/236 (32%), Gaps = 43/236 (18%)
Query: 65 ALRNANIKKDSISLTLLATSTPDHLLPPSSPLITHRLGLMQSGAIDLTGACAGFLYALVM 124
A+ +A + K I ++ T+ ++ + + LG+ A + ACA L AL +
Sbjct: 18 AIADAGLSKGPIVGVIVGTTGGSGEFSGAAGQLAYHLGISGGPAYSVNQACATGLTALAL 77
Query: 125 ADSYI-NSHQKPVLIIAANLLSRRINLEDKDTAIIFGDAAGAVVLAPSPLKDKSGILGIE 183
A + N VL + +FGD A A V+ + G
Sbjct: 78 AVQQVQNGKADIVLAGGSE-------------EFVFGDGAAAAVVESEEHALRRGAHPQA 124
Query: 184 LTSDGSKYDLIKIPTGGSTSPAGTNTHDFYMRITNGADIFYNAVKIMAQSAKQSLRKSDL 243
+ +G +A++A+++L + L
Sbjct: 125 EIVS---TAATFDGASMVPAVSGEG---------------------LARAARKALEGAGL 160
Query: 244 QPQDINRFIPHQANSRIIQKVCEKIGLS----KRIMVNSLKD-FGNSSSASIPLSL 294
P DI+ H + I V +GL + V++ G+ A+ L
Sbjct: 161 TPSDIDYVEAHGTGTPIGDAVELALGLDPDGVRSPAVSATLIMTGHPLGAAGLAIL 216
>gnl|CDD|33230 COG3424, BcsA, Predicted naringenin-chalcone synthase [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 356
Score = 66.9 bits (163), Expect = 7e-12
Identities = 70/311 (22%), Positives = 114/311 (36%), Gaps = 32/311 (10%)
Query: 15 VPNQCIHNSIIE-RHLNLKLGVIEQKTGIKYRYWAEKHETL----TDIAIQAGDIALRNA 69
+P N+ I RHL L L + G EK+E + + A AL +
Sbjct: 37 IPRVLHANAQINRRHLVLPLDWYREPHGF-----GEKNEIFIEEAVPLGVDALRRALDGS 91
Query: 70 NIKKDSISLTLLATSTPDHLLPPS-SPLITHRLGLMQSGA-IDLTG-ACAGFLYALVMAD 126
++ + I + TST L PS I LGL + + G CA L A
Sbjct: 92 PLRPEDIDAVVTVTST--GLATPSLDARIVGELGLSPDTRRVPVWGLGCAAGAAGLARAR 149
Query: 127 SYINSH-QKPVLIIAANLLSRRINLEDK-DTAII----FGDAAGAVVLAPSPLKDKSGIL 180
Y + VL++ L S D + ++ FGD A AVV++ + L
Sbjct: 150 DYCRAAPDANVLVVCVELCSLTYVFADDTKSNLVGTALFGDGAAAVVVSGDRRAEGKRPL 209
Query: 181 GIELTSDGSKYDLIKIPTGGSTSPAGTNTHDFYMRITNGADIFYNAVKIMAQSAKQSLRK 240
++ S P + ++ D+ +A + L
Sbjct: 210 RPDILDSFSTL----YPDSEDIMGWDVGDQGLKVVLSR--DLPNLIESYLAPNVTTFLAT 263
Query: 241 SDLQPQDINRFIPHQANSRIIQKVCEKIGLSKRIMVNS---LKDFGNSSSASIPLSLS-- 295
L +DI ++ H ++I E +GLS + S L+++GN SSA++ L
Sbjct: 264 HGLSIEDIEAWVVHPGGPKVIDAYEESLGLSPEALELSWDVLREYGNMSSATVLFVLEDT 323
Query: 296 LENQRKPFQKG 306
L+ K +G
Sbjct: 324 LQKAPKSGSRG 334
>gnl|CDD|29418 cd00831, CHS_like, Chalcone and stilbene synthases; plant-specific
polyketide synthases (PKS) and related enzymes, also
called type III PKSs. PKS generate an array of different
products, dependent on the nature of the starter
molecule. They share a common chemical strategy, after
the starter molecule is loaded onto the active site
cysteine, a carboxylative condensation reation extends
the polyketide chain. Plant-specific PKS are dimeric
iterative PKSs, using coenzyme A esters to deliver
substrate to the active site, but they differ in the
choice of starter molecule and the number of
condensation reactions..
Length = 361
Score = 64.5 bits (157), Expect = 4e-11
Identities = 70/354 (19%), Positives = 133/354 (37%), Gaps = 56/354 (15%)
Query: 8 ILGFGHAVPNQCIHNSIIERHLNL------------KLGVIEQKTGIKYRY--------- 46
IL G AVP + S + KL + KTGI+ RY
Sbjct: 4 ILAIGTAVPPHRVPQSELVDFYRRLFSSDHLPELKEKLKRLCAKTGIETRYLVLPGGEET 63
Query: 47 ----------WAEKH----ETLTDIAIQAGDIALRNANIKKDSISLTLLATSTPDHLLPP 92
E++ E ++A +A AL A ++ I ++ TST + P
Sbjct: 64 YAPRPEMSPSLDERNDIALEEARELAEEAARGALDEAGLRPSDIDHLVVNTST-GNPTPS 122
Query: 93 SSPLITHRLGLMQS-GAIDLTG-ACAGFLYALVMADSYINSHQKP-VLIIAANLLSRRIN 149
++ +RLGL +L G C+ AL +A + ++ VL+++ L S
Sbjct: 123 LDAMLINRLGLRPDVKRYNLGGMGCSAGAIALDLAKDLLEANPGARVLVVSTELCSLWYR 182
Query: 150 LEDKDTAII----FGDAAGAVVLA--PSPLKDKSGILGIELTSDGSKYDLIKIPTGGSTS 203
D + ++ FGD A AV+L+ P + + + + + D G
Sbjct: 183 GPDHRSMLVGNALFGDGAAAVLLSNDPRDRRRERPLFELVRAASTLLPDSEDA-MGWHLG 241
Query: 204 PAGTNTHDFYMRIT-NGADIFYNAVKIMAQSAKQSLRKSDLQPQDINRFIPHQANSRIIQ 262
G ++ + + ++ + + L + + + H ++
Sbjct: 242 EEG-----LTFVLSRDVPRLVEKNLERVLRKLLARLGIGLFKL-AFDHWCVHPGGRAVLD 295
Query: 263 KVCEKIGLSKRIMVNS---LKDFGNSSSASIPLSLSLENQRKPFQKGEKILTIS 313
V + +GLS + S L+ +GN SS+S+ L+ + ++G++ L I+
Sbjct: 296 AVEKALGLSPEDLEASRMVLRRYGNMSSSSVLYVLAYMEAKGRVKRGDRGLLIA 349
>gnl|CDD|29416 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 = 38.0 bits (88), Expect = 0.003
Identities = 22/95 (23%), Positives = 39/95 (41%), Gaps = 1/95 (1%)
Query: 52 ETLTDIAIQAGDIALRNANIKKDSISLTLLATSTPDHLLPPSSPLITHRLGLMQSGAIDL 111
+ ++A +A AL +A ++ I ++ + LI LGL+ A +
Sbjct: 14 RSPLELAAEAARAALDDAGLEPADIDAVVVGNAAGGRFQSFPGALIAEYLGLLGKPATRV 73
Query: 112 TGACAGFLYALVMADSYINSHQ-KPVLIIAANLLS 145
A A A+ A + I S VL++ A +S
Sbjct: 74 EAAGASGSAAVRAAAAAIASGLADVVLVVGAEKMS 108
>gnl|CDD|107263 cd06268, PBP1_ABC_transporter_LIVBP_like, Periplasmic binding
domain of ATP-binding cassette transporter-like systems
that belong to the type I periplasmic binding fold
protein superfamily. Periplasmic binding domain of
ATP-binding cassette transporter-like systems that
belong to the type I periplasmic binding fold protein
superfamily. They are mostly present in archaea and
eubacteria, and are primarily involved in scavenging
solutes from the environment. ABC-type transporters
couple ATP hydrolysis with the uptake and efflux of a
wide range of substrates across bacterial membranes,
including amino acids, peptides, lipids and sterols, and
various drugs. These systems are comprised of
transmembrane domains, nucleotide binding domains, and
in most bacterial uptake systems, periplasmic binding
proteins (PBPs) which transfer the ligand to the
extracellular gate of the transmembrane domains. These
PBPs bind their substrates selectively and with high
affinity. Members of this group include ABC-type
Leucine-Isoleucine-Valine-Binding Proteins (LIVBP),
which are homologous to the aliphatic amidase
transcriptional repressor, AmiC, of Pseudomonas
aeruginosa. The uncharacterized periplasmic components
of various ABC-type transport systems are included in
this group.
Length = 298
Score = 30.1 bits (68), Expect = 0.86
Identities = 31/161 (19%), Positives = 55/161 (34%), Gaps = 54/161 (33%)
Query: 100 RLGLMQSGAIDLTGACA----GFLYALVMADSYINSHQKPVLIIAANLLSRRINLEDKDT 155
++G++ L+G A +A IN+ A +L R+I L +DT
Sbjct: 1 KIGVLLP----LSGPLAALGEPVRNGAELAVEEINA--------AGGILGRKIELVVEDT 48
Query: 156 A-------------------IIFGDAAGAVVLAPSPLKDKSGILGIELTSDGSKYDLIKI 196
+ G + V LA +P+ +++G+ I
Sbjct: 49 QGDPEAAAAAARELVDDGVDAVIGPLSSGVALAAAPVAEEAGVPLI-------------- 94
Query: 197 PTGGSTSPAGTNTHDFYM-RITNGADIFYNAVKIMAQSAKQ 236
+ G+TSPA T + Y+ R A +A +
Sbjct: 95 -SPGATSPALTGKGNPYVFRTAPSDAQQAAA---LADYLAE 131
>gnl|CDD|37496 KOG2285, KOG2285, KOG2285, E3 ubiquitin ligase, Cullin 1 component
[Posttranslational modification, protein turnover,
chaperones].
Length = 777
Score = 29.7 bits (66), Expect = 1.1
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 221 DIFYNAVKIMAQSAKQSLRKSDLQPQDINRFIPHQANSRI 260
D+FY+ K+ K + D+ +DIN FI HQA R+
Sbjct: 40 DLFYHVHKVCLWDDKGPAKIRDILTRDINEFI-HQAQKRV 78
>gnl|CDD|29238 cd01465, vWA_subgroup, VWA subgroup: Von Willebrand factor type A
(vWA) domain was originally found in the blood
coagulation protein von Willebrand factor (vWF).
Typically, the vWA domain is made up of approximately
200 amino acid residues folded into a classic a/b
para-rossmann type of fold. The vWA domain, since its
discovery, has drawn great interest because of its
widespread occurrence and its involvement in a wide
variety of important cellular functions. These include
basal membrane formation, cell migration, cell
differentiation, adhesion, haemostasis, signaling,
chromosomal stability, malignant transformation and in
immune defenses In integrins these domains form
heterodimers while in vWF it forms multimers. There are
different interaction surfaces of this domain as seen by
the various molecules it complexes with. Ligand binding
in most cases is mediated by the presence of a metal ion
dependent adhesion site termed as the MIDAS motif that
is a characteristic feature of most, if not all A
domains. Not much is known about the function of the VWA
domain in these proteins. The members do have a
conserved MIDAS motif. The biochemical function however
is not known..
Length = 170
Score = 29.0 bits (65), Expect = 2.0
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 140 AANLLSRRINLEDKDTAIIFGDAAGAVVLAPSPLKDKSGILGI--ELTSDGS 189
A LL ++ +D+ + + AA VL +P++DK+ IL LT+ GS
Sbjct: 24 ALKLLVDQLRPDDRLAIVTYDGAAE-TVLPATPVRDKAAILAAIDRLTAGGS 74
>gnl|CDD|111670 pfam02797, Chal_sti_synt_C, Chalcone and stilbene synthases,
C-terminal domain. This domain of chalcone synthase is
reported to be structurally similar to domains in
thiolase and beta-ketoacyl synthase. The differences in
activity are accounted for by differences in the
N-terminal domain.
Length = 151
Score = 27.6 bits (62), Expect = 5.0
Identities = 17/70 (24%), Positives = 35/70 (50%), Gaps = 9/70 (12%)
Query: 229 IMAQSAKQSLRKSDLQPQDINRF-----IPHQANSRIIQKVCEKIGLSKRIMVNS---LK 280
+++++ ++ L ++ P I+ + I H I+ +V K+GL + S L
Sbjct: 37 LISKNIEKCLVEA-FDPLGISDWNSIFWIAHPGGPAILDQVEAKLGLKPEKLRASRHVLS 95
Query: 281 DFGNSSSASI 290
++GN SSA +
Sbjct: 96 EYGNMSSACV 105
>gnl|CDD|34894 COG5306, COG5306, Uncharacterized conserved protein [Function
unknown].
Length = 621
Score = 27.3 bits (60), Expect = 6.2
Identities = 12/63 (19%), Positives = 19/63 (30%), Gaps = 1/63 (1%)
Query: 25 IERHLNLKLGVIEQKTGIKYRYWAEKHETLTDIAIQAGDIALRNANIKKDSISLTLLATS 84
+ K G + G YW E + A+ + N K I L + +
Sbjct: 242 TGSDDSFKNGAVRIYDGNVLPYWIEYWDPNNGRALIWVRDNIVENNQSKT-IYLYYGSET 300
Query: 85 TPD 87
P
Sbjct: 301 APT 303
>gnl|CDD|35156 COG5597, COG5597, Alpha-N-acetylglucosamine transferase [Cell
envelope biogenesis, outer membrane].
Length = 368
Score = 27.3 bits (60), Expect = 6.3
Identities = 13/50 (26%), Positives = 17/50 (34%), Gaps = 10/50 (20%)
Query: 197 PTGGSTSPAGTNTHDFYMRITNG----------ADIFYNAVKIMAQSAKQ 236
P G S S T H +TNG DI+ N + + K
Sbjct: 47 PEGLSPSSKVTAVHALVTLVTNGDYALGNRATLRDIYLNRTRALVVVLKT 96
>gnl|CDD|36194 KOG0976, KOG0976, KOG0976, Rho/Rac1-interacting serine/threonine
kinase Citron [Signal transduction mechanisms].
Length = 1265
Score = 27.0 bits (59), Expect = 6.6
Identities = 19/91 (20%), Positives = 43/91 (47%), Gaps = 7/91 (7%)
Query: 225 NAVKIMAQSAKQSLRKSDLQPQDIN----RFIPHQANSRIIQKVCEKIGLSKRIMVNSLK 280
N I+ QS K S +++ + +D+N H++ RI+Q C ++ + K+ + ++++
Sbjct: 71 NESVIIEQSKKVSTQETRIYRRDVNLLEDDLKHHESQIRILQNKCLRLEMEKQKLQDTIQ 130
Query: 281 DFGNSSSASIPLSLSLENQRKPFQKGEKILT 311
+ + + +EN K E L+
Sbjct: 131 GAQDDKKEN---EIEIENLNSRLHKLEDELS 158
>gnl|CDD|107344 cd06349, PBP1_ABC_ligand_binding_like_14, Type I periplasmic
ligand-binding domain of uncharacterized ABC (Atpase
Binding Cassette)-type active transport systems. This
subgroup includes the type I periplasmic ligand-binding
domain of uncharacterized ABC (Atpase Binding
Cassette)-type active transport systems that are
predicted to be involved in the uptake of amino acids,
peptides, or inorganic ions. This subgroup has high
sequence similarity to members of the family of
hydrophobic amino acid transporters (HAAT), such as
leucine/isoleucine/valine binding protein (LIVBP);
however its ligand specificity has not been determined
experimentally.
Length = 340
Score = 27.0 bits (60), Expect = 7.3
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 152 DKDTAIIFGDAAGAVVLAPSPLKDKSGILGIELTSDGSKYDLIKI 196
D + GD + V +A SP+ ++G++ + T+ S D K
Sbjct: 65 DPRIVAVLGDFSSGVSMAASPIYQRAGLVQLSPTN--SHPDFTKG 107
>gnl|CDD|99823 cd05780, DNA_polB_Kod1_like_exo, DEDDy 3'-5' exonuclease domain of
Pyrococcus kodakaraensis Kod1 and similar archaeal
family-B DNA polymerases. The 3'-5' exonuclease domain
of archaeal family-B DNA polymerases with similarity to
Pyrococcus kodakaraensis Kod1, including polymerases
from Desulfurococcus (D. Tok Pol) and Thermococcus
gorgonarius (Tgo Pol). Kod1, D. Tok Pol, and Tgo Pol are
thermostable enzymes that exhibit both polymerase and
3'-5' exonuclease activities. They are family-B DNA
polymerases. Their amino termini harbor a DEDDy-type
DnaQ-like 3'-5' exonuclease domain that contains three
sequence motifs termed ExoI, ExoII and ExoIII, with a
specific YX(3)D pattern at ExoIII. These motifs are
clustered around the active site and are involved in
metal binding and catalysis. The exonuclease domain of
family B polymerases contains a beta hairpin structure
that plays an important role in active site switching in
the event of nucleotide misincorporation. Members of
this subfamily show similarity to eukaryotic DNA
polymerases involved in DNA replication. Some archaea
possess multiple family-B DNA polymerases. Phylogenetic
analyses of eubacterial, archaeal, and eukaryotic
family-B DNA polymerases support independent gene
duplications during the evolution of archaeal and
eukaryotic family-B DNA polymerases.
Length = 195
Score = 26.5 bits (59), Expect = 9.1
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 5/30 (16%)
Query: 173 LKDKSGILGIELT--SDGSKYDLIKIPTGG 200
LK ++ LGIEL DGS+ IKI GG
Sbjct: 88 LKKRAEKLGIELDLGRDGSE---IKIQRGG 114
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.319 0.135 0.386
Gapped
Lambda K H
0.267 0.0549 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,729,004
Number of extensions: 190391
Number of successful extensions: 467
Number of sequences better than 10.0: 1
Number of HSP's gapped: 448
Number of HSP's successfully gapped: 24
Length of query: 325
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 231
Effective length of database: 4,232,491
Effective search space: 977705421
Effective search space used: 977705421
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 (21.7 bits)
S2: 57 (26.1 bits)