RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780755|ref|YP_003065168.1| octaprenyl-diphosphate
synthase protein [Candidatus Liberibacter asiaticus str. psy62]
(322 letters)
>gnl|CDD|173833 cd00685, Trans_IPPS_HT, Trans-Isoprenyl Diphosphate Synthases,
head-to-tail. These trans-Isoprenyl Diphosphate
Synthases (Trans_IPPS) catalyze head-to-tail (HT) (1'-4)
condensation reactions. This CD includes all-trans
(E)-isoprenyl diphosphate synthases which synthesize
various chain length (C10, C15, C20, C25, C30, C35, C40,
C45, and C50) linear isoprenyl diphosphates from
precursors, isopentenyl diphosphate (IPP) and
dimethylallyl diphosphate (DMAPP). They catalyze the
successive 1'-4 condensation of the 5-carbon IPP to
allylic substrates geranyl-, farnesyl-, or
geranylgeranyl-diphosphate. Isoprenoid chain elongation
reactions proceed via electrophilic alkylations in which
a new carbon-carbon single bond is generated through
interaction between a highly reactive electron-deficient
allylic carbocation and an electron-rich carbon-carbon
double bond. The catalytic site consists of a large
central cavity formed by mostly antiparallel alpha
helices with two aspartate-rich regions (DDXX(XX)D)
located on opposite walls. These residues mediate
binding of prenyl phosphates via bridging Mg2+ ions,
inducing proposed conformational changes that close the
active site to solvent, protecting and stabilizing
reactive carbocation intermediates. Farnesyl diphosphate
synthases produce the precursors of steroids,
cholesterol, sesquiterpenes, farnsylated proteins, heme,
and vitamin K12; and geranylgeranyl diphosphate and
longer chain synthases produce the precursors of
carotenoids, retinoids, diterpenes, geranylgeranylated
chlorophylls, ubiquinone, and archaeal ether linked
lipids. Isoprenyl diphosphate synthases are widely
distributed among archaea, bacteria, and eukareya.
Length = 259
Score = 268 bits (688), Expect = 1e-72
Identities = 115/300 (38%), Positives = 168/300 (56%), Gaps = 45/300 (15%)
Query: 25 SDVEMIPDVVKYLIFSGGKRLRPMLTLATALMLEYRGDNHVL-LACAIEFIHTATLLHDD 83
S+VE++ + ++YL+ +GGKRLRP+L L A L L LA AIE +HTA+L+HDD
Sbjct: 1 SEVELLREALRYLLLAGGKRLRPLLVLLAARALGGPELEAALRLAAAIELLHTASLVHDD 60
Query: 84 VVDDSALRRGKVAARLVWGNQTSVLVGDFLLSQAFCMVIETKSQEALEALSLVACT---L 140
V+D+S LRRGK V+GN T++L GD+LL++AF ++ + AL L + L
Sbjct: 61 VMDNSDLRRGKPTVHKVFGNATAILAGDYLLARAFELLARLGNPYYPRALELFSEAILEL 120
Query: 141 AEGELRQLSLSKNLDVTEEDYLHVIKSKTAVLFSAALEVSSLIAGVQNSVRQALKSYGMN 200
EG+L L + DVTEE+YL +I+ KTA LF+AA + +L+AG +ALK +G N
Sbjct: 121 VEGQLLDLLSEYDTDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRN 180
Query: 201 LGIAFQLVDDVLDYRGEVNEMGKNIGEDFRNGKPTLPVILAFQRGTKREKNFWKSTINDG 260
LG+AFQ+ DD+LD G+ +GK +G D R GK TLPV+LA +
Sbjct: 181 LGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCTLPVLLALRE---------------- 224
Query: 261 KISVENLKKAFIIMRENRALVDTEYRAYSYGQKAKDSLRCLPDSSWKKSLMEVVDFCLQR 320
A Y +KA ++L+ LP+S +++L + DF L+R
Sbjct: 225 -------------------------LAREYEEKALEALKALPESPAREALRALADFILER 259
>gnl|CDD|30491 COG0142, IspA, Geranylgeranyl pyrophosphate synthase [Coenzyme
metabolism].
Length = 322
Score = 266 bits (681), Expect = 6e-72
Identities = 126/328 (38%), Positives = 202/328 (61%), Gaps = 13/328 (3%)
Query: 2 KMLEDLTLKDMEKVNFLILKRIC-SDVEMIPDVVKYLIFSGGKRLRPMLTLATALMLEYR 60
L L LK + ++ L+ + + SD E++ + ++YL+ +GGKRLRP+L L A L
Sbjct: 1 SDLLALLLKRLARIEELLSELLSGSDPELLLEAMRYLLLAGGKRLRPLLVLLAAEALGID 60
Query: 61 ----GDNHVLLACAIEFIHTATLLHDDVVDDSALRRGKVAARLVWGNQTSVLVGDFLLSQ 116
G++ + LA AIE IHTA+L+HDD++DD LRRGK +G T++L GD LL+
Sbjct: 61 LETGGNDALDLAAAIELIHTASLIHDDLMDDDDLRRGKPTVHAKFGEATAILAGDALLAA 120
Query: 117 AFCMVIETKSQ--EALEALSLVACTLAEGELRQLSLSKNLDVTEEDYLHVIKSKTAVLFS 174
AF ++ + S+ EA++AL+ L G+ L +N VT E+YL VI+ KTA LF+
Sbjct: 121 AFELLSKLGSEALEAIKALAEAINGLCGGQALDL-AFENKPVTLEEYLRVIELKTAALFA 179
Query: 175 AALEVSSLIAGVQNSVRQALKSYGMNLGIAFQLVDDVLDYRGEVNEMGKNIGEDFRNGKP 234
AA + +++AG + +AL+ YG NLG+AFQ+ DD+LD G+ E+GK +G D + GKP
Sbjct: 180 AAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDITGDEEELGKPVGSDLKEGKP 239
Query: 235 TLPVILAFQRGTKREKNFWKSTINDGKISVENLKKAFIIMRENRALVDTEYRAYSYGQKA 294
TLPV+LA ++ + +K G++ ++A ++R++ A+ + A +Y +KA
Sbjct: 240 TLPVLLALEKANEDQKLLRILLEGGGEV-----EEALELLRKSGAIEYAKNLAKTYVEKA 294
Query: 295 KDSLRCLPDSSWKKSLMEVVDFCLQRLN 322
K++L LPDS K++L+E+ DF ++R
Sbjct: 295 KEALEKLPDSEAKEALLELADFIIKRKY 322
>gnl|CDD|144078 pfam00348, polyprenyl_synt, Polyprenyl synthetase.
Length = 260
Score = 209 bits (534), Expect = 8e-55
Identities = 84/221 (38%), Positives = 133/221 (60%), Gaps = 6/221 (2%)
Query: 34 VKYLIFSGGKRLRPMLTLATALMLEYRGDNHVLLACAIEFIHTATLLHDDVVDDSALRRG 93
+ Y + +GGKR+RP+L + A L + + LACAIE IHTA+L+HDD++D+S LRRG
Sbjct: 5 MLYYLLAGGKRIRPLLVVLAARALGVEPETLLYLACAIEMIHTASLVHDDLMDNSDLRRG 64
Query: 94 KVAARLVWGNQTSVLVGDFLLSQAFCMVIETK----SQEALEALSLVACTLAEGELRQLS 149
K +G ++L GD LLS+AF ++ + + L A+GE+ QL
Sbjct: 65 KPTCHKKFGEAGAILAGDALLSRAFQLLALLGHVRPEPKYILISELANAVGAQGEVGQLM 124
Query: 150 --LSKNLDVTEEDYLHVIKSKTAVLFSAALEVSSLIAGVQNSVRQALKSYGMNLGIAFQL 207
++ D+T E+YL ++ KTA LF A++++ +++AG + L +G +LG+AFQ+
Sbjct: 125 DLETEGKDITLEEYLRIVSYKTAALFYASVQLGAIVAGADEEDEKDLYDFGRDLGLAFQI 184
Query: 208 VDDVLDYRGEVNEMGKNIGEDFRNGKPTLPVILAFQRGTKR 248
DD+LD G+ E+GK +G D + GK TLPV+LA + +
Sbjct: 185 QDDILDLTGDTEELGKPVGTDLQEGKSTLPVLLALEGAREE 225
>gnl|CDD|173836 cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate Synthases.
Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of
class 1 isoprenoid biosynthesis enzymes which either
synthesis geranyl/farnesyl diphosphates (GPP/FPP) or
longer chained products from isoprene precursors,
isopentenyl diphosphate (IPP) and dimethylallyl
diphosphate (DMAPP), or use geranyl (C10)-, farnesyl
(C15)-, or geranylgeranyl (C20)-diphosphate as
substrate. These enzymes produce a myriad of precursors
for such end products as steroids, cholesterol,
sesquiterpenes, heme, carotenoids, retinoids,
diterpenes, ubiquinone, and archaeal ether linked
lipids; and are widely distributed among archaea,
bacteria, and eukareya. The enzymes in this family share
the same 'isoprenoid synthase fold' and include the
head-to-tail (HT) IPPS which catalyze the successive
1'-4 condensation of the 5-carbon IPP to the growing
isoprene chain to form linear, all-trans, C10-, C15-,
C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid
diphosphates. The head-to-head (HH) IPPS catalyze the
successive 1'-1 condensation of 2 farnesyl or 2
geranylgeranyl isoprenoid diphosphates. Isoprenoid chain
elongation reactions proceed via electrophilic
alkylations in which a new carbon-carbon single bond is
generated through interaction between a highly reactive
electron-deficient allylic carbocation and an
electron-rich carbon-carbon double bond. The catalytic
site consists of a large central cavity formed by mostly
antiparallel alpha helices with two aspartate-rich
regions located on opposite walls. These residues
mediate binding of prenyl phosphates via bridging Mg2+
ions, inducing proposed conformational changes that
close the active site to solvent, stabilizing reactive
carbocation intermediates. Mechanistically and
structurally distinct, cis-IPPS are not included in this
CD.
Length = 236
Score = 196 bits (501), Expect = 6e-51
Identities = 82/207 (39%), Positives = 120/207 (57%), Gaps = 2/207 (0%)
Query: 45 LRPMLTLATALMLEYRGDNHVLLACAIEFIHTATLLHDDVVDDSALRRGKVAARLV-WGN 103
RP+L L A L + + LA A+E +H A+L+HDD+VDDS LRRGK A L +GN
Sbjct: 1 SRPLLVLLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDDSDLRRGKPTAHLRRFGN 60
Query: 104 QTSVLVGDFLLSQAFCMVIETKSQEALEALSLVACTLAEGELRQLSLSKNLDVTEEDYLH 163
++L GD+LL++AF ++ ALE + L EG+ L ++ T ++YL
Sbjct: 61 ALAILAGDYLLARAFQLLARLGYPRALELFAEALRELLEGQALDLEFERDTYETLDEYLE 120
Query: 164 VIKSKTAVLFSAALEVSSLIAGVQNSVRQALKSYGMNLGIAFQLVDDVLDYRGEVNEMGK 223
+ KTA L + + ++G + +ALK YG LG+AFQL DD+LD G+ E+GK
Sbjct: 121 YCRYKTAGLVGLLCLLGAGLSGADDEQAEALKDYGRALGLAFQLTDDLLDVFGDAEELGK 180
Query: 224 NIGEDFRNGKPTLPVILAFQRGTKREK 250
+G D R G+ TLPVILA +R + +
Sbjct: 181 -VGSDLREGRITLPVILARERAAEYAE 206
>gnl|CDD|164542 CHL00151, preA, prenyl transferase; Reviewed.
Length = 323
Score = 187 bits (477), Expect = 3e-48
Identities = 96/297 (32%), Positives = 156/297 (52%), Gaps = 8/297 (2%)
Query: 29 MIPDVVKYLIFSGGKRLRPMLTLATALMLEYRGD---NHVLLACAIEFIHTATLLHDDVV 85
++ K+L +GGKR+RP + L A + + LA E IHTA+L+HDDV+
Sbjct: 32 ILYAAAKHLFSAGGKRIRPAIVLLVAKATGGNMEIKTSQQRLAEITEIIHTASLVHDDVI 91
Query: 86 DDSALRRGKVAARLVWGNQTSVLVGDFLLSQAFCMVIETKSQEALEALSLVACTLAEGEL 145
D+ ++RRG ++G + +VL GDFL +Q+ + + E ++ +S V AEGE+
Sbjct: 92 DECSIRRGIPTVHKIFGTKIAVLAGDFLFAQSSWYLANLNNLEVVKLISKVITDFAEGEI 151
Query: 146 RQLSLSKNLDVTEEDYLHVIKSKTAVLFSAALEVSSLIAGVQNSVRQALKSYGMNLGIAF 205
RQ + + ++ +Y+ KTA L +A+ + ++L++ YG +LG+AF
Sbjct: 152 RQGLVQFDTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAF 211
Query: 206 QLVDDVLDYRGEVNEMGKNIGEDFRNGKPTLPVILAFQRGTKREKNFWKSTINDGKISVE 265
Q++DDVLD +GK IG D +NG T PV+ A + +K K + IS
Sbjct: 212 QIIDDVLDITSSTESLGKPIGSDLKNGNLTAPVLFALTQNSKLAKLIEREFCETKDIS-- 269
Query: 266 NLKKAFIIMRENRALVDTEYRAYSYGQKAKDSLRCLPDSSWKKSLMEVVDFCLQRLN 322
+A I++E + + A + Q A L+ LP SS K SL+E+ +F + RLN
Sbjct: 270 ---QALQIIKETNGIEKAKDLALEHMQAAIQCLKFLPPSSAKDSLIEIANFIINRLN 323
>gnl|CDD|35995 KOG0776, KOG0776, KOG0776, Geranylgeranyl pyrophosphate
synthase/Polyprenyl synthetase [Coenzyme transport and
metabolism].
Length = 384
Score = 167 bits (425), Expect = 3e-42
Identities = 98/296 (33%), Positives = 151/296 (51%), Gaps = 19/296 (6%)
Query: 34 VKYLIFSGGKRLRPMLTLATALMLEYRGD--NHVLLACAIEFIHTATLLHDDVV--DDSA 89
++YL+ +GGKR+RP+L LA A L GD + LA +E IHTA+L+HDDV DD+
Sbjct: 99 MRYLLLAGGKRVRPLLCLA-ACELVGSGDESSQRSLAEIVEMIHTASLIHDDVPCMDDAD 157
Query: 90 LRRGKVAARLVWGNQTSVLVGDFLLSQAFCMVIETKSQEALEALSLVACTLAEGELRQLS 149
LRRGK V+GN+ +VL GD LL+ A + ++ +E ++ L GE Q
Sbjct: 158 LRRGKPTNHKVFGNKMAVLAGDALLALASEHLASLENPVVVELMASAIADLVRGEFTQGL 217
Query: 150 LSKNL----DVTEEDYLHVIKSKTAVLFSAALEVSSLIAGVQNSVRQALKSYGMNLGIAF 205
++ DV E KTA L + + ++++ G V +A YG LG+AF
Sbjct: 218 VAGEGLDLDDVGLEYLEFKTLLKTASLLAKSCVAAAILGGGSEEVIEAAFEYGRCLGLAF 277
Query: 206 QLVDDVLDYRGEVNEMGKNIGEDFRNGKPTLPVILAFQRGTK-REKNFWKSTINDGKISV 264
Q+VDD+LD+ E+GK G+D + GK T PV+ A ++ + REK +
Sbjct: 278 QVVDDILDFTKSSEELGKTAGKDLKAGKLTAPVLFALEKSPELREK------LEREFSEP 331
Query: 265 ENLKKAFIIMRENRALVDTEYRAYSYGQKAKDSLRCLPDSSWKKSLMEVVDFCLQR 320
+ A + + +Y A + KA ++L+ LP S + +L +V L R
Sbjct: 332 LDGFDADKAV---PGVALAKYLARRHNNKALEALQSLPRSEARSALENLVLAVLTR 384
>gnl|CDD|173830 cd00385, Isoprenoid_Biosyn_C1, Isoprenoid Biosynthesis enzymes,
Class 1. Superfamily of trans-isoprenyl diphosphate
synthases (IPPS) and class I terpene cyclases which
either synthesis geranyl/farnesyl diphosphates (GPP/FPP)
or longer chained products from isoprene precursors,
isopentenyl diphosphate (IPP) and dimethylallyl
diphosphate (DMAPP), or use geranyl (C10)-, farnesyl
(C15)-, or geranylgeranyl (C20)-diphosphate as
substrate. These enzymes produce a myriad of precursors
for such end products as steroids, cholesterol,
sesquiterpenes, heme, carotenoids, retinoids, and
diterpenes; and are widely distributed among archaea,
bacteria, and eukaryota.The enzymes in this superfamily
share the same 'isoprenoid synthase fold' and include
several subgroups. The head-to-tail (HT) IPPS catalyze
the successive 1'-4 condensation of the 5-carbon IPP to
the growing isoprene chain to form linear, all-trans,
C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or
C50-isoprenoid diphosphates. Cyclic monoterpenes,
diterpenes, and sesquiterpenes, are formed from their
respective linear isoprenoid diphosphates by class I
terpene cyclases. The head-to-head (HH) IPPS catalyze
the successive 1'-1 condensation of 2 farnesyl or 2
geranylgeranyl isoprenoid diphosphates. Cyclization of
these 30- and 40-carbon linear forms are catalyzed by
class II cyclases. Both the isoprenoid chain elongation
reactions and the class I terpene cyclization reactions
proceed via electrophilic alkylations in which a new
carbon-carbon single bond is generated through
interaction between a highly reactive electron-deficient
allylic carbocation and an electron-rich carbon-carbon
double bond. The catalytic site consists of a large
central cavity formed by mostly antiparallel alpha
helices with two aspartate-rich regions located on
opposite walls. These residues mediate binding of prenyl
phosphates via bridging Mg2+ ions, inducing proposed
conformational changes that close the active site to
solvent, stabilizing reactive carbocation intermediates.
Generally, the enzymes in this family exhibit an
all-trans reaction pathway, an exception, is the
cis-trans terpene cyclase, trichodiene synthase.
Mechanistically and structurally distinct, class II
terpene cyclases and cis-IPPS are not included in this
CD.
Length = 243
Score = 144 bits (366), Expect = 2e-35
Identities = 73/209 (34%), Positives = 102/209 (48%), Gaps = 20/209 (9%)
Query: 45 LRPMLTLATALMLEYRGDNHVLLACAIEFIHTATLLHDDVVDDSALRRGKVAARLV---W 101
RP+ L L A+E +H A+L+HDD+VDDS RRG A L
Sbjct: 1 FRPLAVLLEPEASR--------LRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVAID 52
Query: 102 GNQTSVLVGDFLLSQAFCMVIETKSQEALEALSLVACTLAEGELRQLSLSKNLDVTEEDY 161
G ++L GD LL+ AF + S EALE L+ L EG+L L + T E+Y
Sbjct: 53 GLPEAILAGDLLLADAFEELAREGSPEALEILAEALLDLLEGQLLDLKWRREYVPTLEEY 112
Query: 162 LHVIKSKTAVLFSAALEVSSLIAGVQNSVRQALKSYGMNLGIAFQLVDDVLDYRGEVNEM 221
L + KTA L A + + ++G + + +AL+ G LG+AFQL +D+LDY G+
Sbjct: 113 LEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERG 172
Query: 222 GKNIGEDFRNGKPTLPVILAFQRGTKREK 250
GK TLPV+ A + G E
Sbjct: 173 ---------EGKCTLPVLYALEYGVPAED 192
>gnl|CDD|35996 KOG0777, KOG0777, KOG0777, Geranylgeranyl pyrophosphate
synthase/Polyprenyl synthetase [Coenzyme transport and
metabolism].
Length = 322
Score = 77.0 bits (189), Expect = 7e-15
Identities = 55/215 (25%), Positives = 101/215 (46%), Gaps = 5/215 (2%)
Query: 28 EMIPDVVKYLIFSGGKRLRPMLTLATALMLEYRGDNHVLLACAIEFIHTATLLHDDVVDD 87
++ Y++ GK+ R L +A L D +++ +E +H ++LL DD+ D+
Sbjct: 21 SILLKPYNYILQKPGKQFRLNLIVAFNHWLNLPKDKLAIISQIVEMLHNSSLLIDDIEDN 80
Query: 88 SALRRGKVAARLVWGNQTSVLVGDFLLSQAFCMVIETKSQEALEALSLVACTLAEGELRQ 147
S LRRG+ A ++G +++ +++ A V + A++ + L G+
Sbjct: 81 SPLRRGQPVAHSIYGVPSTINTANYMYFLALEKVSQLDHPNAIKIFTEQLLELHRGQGLD 140
Query: 148 LSLSKNLDV-TEEDYLHVIKSKTAVLFSAALEVSSLIAGVQNSVRQALKSYGMNLGIAFQ 206
+ L TEE Y +++ +KT LF AL + L + ++ L LG+ FQ
Sbjct: 141 IYWRDFLTCPTEEMYKNMVMNKTGGLFRLALRLMQLFS----HHKEDLVPLINLLGLIFQ 196
Query: 207 LVDDVLDYRGEVNEMGKNIGEDFRNGKPTLPVILA 241
+ DD L+ + + K+ ED GK + P+I A
Sbjct: 197 IRDDYLNLKDKEYSENKSFAEDLTEGKFSFPIIHA 231
>gnl|CDD|35930 KOG0711, KOG0711, KOG0711, Polyprenyl synthetase [Coenzyme
transport and metabolism].
Length = 347
Score = 50.8 bits (121), Expect = 5e-07
Identities = 65/271 (23%), Positives = 110/271 (40%), Gaps = 26/271 (9%)
Query: 29 MIPDVVKYLIFS------GGKRLRPMLTLAT-ALMLEYRGDNH------VLLACAIEFIH 75
D ++L GGK R + + + ++E R + ++L +E +
Sbjct: 32 ESGDATEWLKEVLDYNVIGGKLNRGLSVVDSFKALVEPRKLDEEELQLALILGWCVELLQ 91
Query: 76 TATLLHDDVVDDSALRRGKVAARLVWGNQTSVLVGDFLLSQAFCMVIETK-----SQEAL 130
L+ DD++D+S RRG+ G + FLL A +++ L
Sbjct: 92 AFFLVADDIMDNSKTRRGQPCWYQKPGVGLDAINDAFLLEAAIYKLLKKHFRNIYCYVDL 151
Query: 131 EALSLVACTLAEGELRQLSLSKNLDV---TEEDYLHVIKSKTAVL-FSAALEVSSLIAGV 186
L E + N D+ + E Y+ +++ KTA F + ++ L+AG+
Sbjct: 152 VELFHEVTFQTELGDLLTTPEGNKDLSKFSLEKYVFIVEYKTAYYSFYLPVALALLLAGI 211
Query: 187 QNSVRQA-LKSYGMNLGIAFQLVDDVLDYRGEVNEMGKNIGEDFRNGKPTLPVILAFQRG 245
N A K + LG FQ+ DD LD G+ GK IG D ++ K + V+ A QR
Sbjct: 212 ANLKEHACEKKVLLLLGEYFQVQDDYLDCFGDPEVTGK-IGTDIQDNKCSWLVVKALQRA 270
Query: 246 TKREKNFWKSTINDGKISVENLKKAFIIMRE 276
+ + N GK E + K + +E
Sbjct: 271 SAEQYKILFE--NYGKPEAEAVAKVKALYKE 299
>gnl|CDD|32666 COG2838, Icd, Monomeric isocitrate dehydrogenase [Energy production
and conversion].
Length = 744
Score = 28.8 bits (64), Expect = 2.2
Identities = 13/39 (33%), Positives = 21/39 (53%)
Query: 279 ALVDTEYRAYSYGQKAKDSLRCLPDSSWKKSLMEVVDFC 317
A++ R + K KD+ +PDS++ EV+DFC
Sbjct: 357 AMIRNSGRMWGKDGKLKDTKAVIPDSTYAGIYQEVIDFC 395
>gnl|CDD|35282 KOG0059, KOG0059, KOG0059, Lipid exporter ABCA1 and related
proteins, ABC superfamily [Lipid transport and
metabolism, General function prediction only].
Length = 885
Score = 28.5 bits (63), Expect = 2.4
Identities = 22/110 (20%), Positives = 38/110 (34%), Gaps = 5/110 (4%)
Query: 121 VIETKSQEALEALSLVACTLAEGELRQLSLSKNLDVTEEDYLHVIKSKTAVLFSAALEVS 180
++ + S E EAL + G+LR + + L + EVS
Sbjct: 752 ILTSHSMEEAEALCTRTAIMVIGQLRCIGSPQELKSRYGSGYTLTVR-----IKELPEVS 806
Query: 181 SLIAGVQNSVRQALKSYGMNLGIAFQLVDDVLDYRGEVNEMGKNIGEDFR 230
+ +QN A+ +AF++ D + EV + E F
Sbjct: 807 EVEKLLQNRFPGAVLKERHAGLLAFEIPKDEVVSLSEVFLALEKAKESFG 856
>gnl|CDD|35828 KOG0608, KOG0608, KOG0608, Warts/lats-like serine threonine kinases
[Cell cycle control, cell division, chromosome
partitioning].
Length = 1034
Score = 28.2 bits (62), Expect = 3.2
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 67 LACAIEFIHTATLLHDDVVDDSAL 90
L CAIE +H +H D+ D+ L
Sbjct: 738 LTCAIESVHKMGFIHRDIKPDNIL 761
>gnl|CDD|112770 pfam03971, IDH, Monomeric isocitrate dehydrogenase.
NADP(+)-dependent isocitrate dehydrogenase (ICD) is an
important enzyme of the intermediary metabolism, as it
controls the carbon flux within the citric acid cycle
and supplies the cell with 2-oxoglutarate EC:1.1.1.42
and NADPH for biosynthetic purposes.
Length = 735
Score = 27.9 bits (62), Expect = 3.7
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 279 ALVDTEYRAYSYGQKAKDSLRCLPDSSWKKSLMEVVDFC 317
A++ + + K KD+ +PDS++ EV+DFC
Sbjct: 351 AMIRNSGQMWGKDGKLKDTKAVIPDSTYAGVYQEVIDFC 389
>gnl|CDD|144030 pfam00290, Trp_syntA, Tryptophan synthase alpha chain.
Length = 258
Score = 28.0 bits (63), Expect = 4.2
Identities = 13/55 (23%), Positives = 22/55 (40%), Gaps = 19/55 (34%)
Query: 186 VQNSVRQALKSYGMNLGIAFQLVDDVLDYRGEVNEMGKNIGEDFRNGKPTLPVIL 240
+Q + +AL GM L +LV E+ RN ++P++L
Sbjct: 56 IQRANLRALAG-GMTLDQTLELV------------------EEIRNKGTSVPIVL 91
>gnl|CDD|144184 pfam00494, SQS_PSY, Squalene/phytoene synthase.
Length = 262
Score = 27.7 bits (62), Expect = 4.2
Identities = 33/169 (19%), Positives = 61/169 (36%), Gaps = 42/169 (24%)
Query: 82 DDVVDDSALRRGKVAARLVW--------GNQTSVLVGDFLLSQAFCMVIETK--SQEALE 131
DD+VD+ + ARL W + + +A + +E
Sbjct: 34 DDIVDEVSDP-LIGRARLDWWRDALDAAFAGRRLGPSTHPVLRALADTVRRYDLPREPFL 92
Query: 132 ALSLVACTLAEGELRQLSLSKNLDVTEED---YLHVIKSKTAVLFSAALEVSSLIAGVQN 188
L +G ++ L K+ T + Y + + A + + GV++
Sbjct: 93 EL-------IDG--MEMDLEKDRYETLAELEEYCY----RVA---GVVGLLLLRLLGVRD 136
Query: 189 SVRQALKSYGMNLGIAFQLVDDVLDYRGEVNEMGKNIGEDFRNGKPTLP 237
+A +LG+A QL ++L +++GED R G+ LP
Sbjct: 137 D-AEAADEAARHLGLALQLT-NIL----------RDVGEDARRGRVYLP 173
>gnl|CDD|132964 cd06633, STKc_TAO3, Catalytic domain of the Protein
Serine/Threonine Kinase, Thousand-and-one amino acids 3.
Serine/threonine kinases (STKs), thousand-and-one amino
acids 3 (TAO3) subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The TAO subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. TAO proteins possess mitogen-activated protein
kinase (MAPK) kinase kinase (MAPKKK or MAP3K or MKKK)
activity. MAPK signaling cascades are important in
mediating cellular responses to extracellular signals.
TAO3 is also known as JIK (JNK inhibitory kinase) or KFC
(kinase from chicken). It specifically activates c-Jun
N-terminal kinase (JNK), presumably by phosphorylating
and activating MKK4/MKK7. In Saccharomyces cerevisiae,
TAO3 is a component of the RAM (regulation of Ace2p
activity and cellular morphogenesis) signaling pathway.
TAO3 is upregulated in retinal ganglion cells after
axotomy, and may play a role in apoptosis.
Length = 313
Score = 27.3 bits (60), Expect = 5.6
Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 2/64 (3%)
Query: 259 DGKISVENLKKAFIIMRENR-ALVDTEYRAYSYGQKAKDSLRCLPDSSWKKSLMEVVDFC 317
DGK+ V +L I + E + L + + Y DS L + W S VD+C
Sbjct: 198 DGKVDVWSLGITCIELAERKPPLFNMNAMSALYHIAQNDS-PTLQSNEWTDSFRGFVDYC 256
Query: 318 LQRL 321
LQ++
Sbjct: 257 LQKI 260
>gnl|CDD|36874 KOG1661, KOG1661, KOG1661, Protein-L-isoaspartate(D-aspartate)
O-methyltransferase [Posttranslational modification,
protein turnover, chaperones].
Length = 237
Score = 27.2 bits (60), Expect = 6.7
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 5/58 (8%)
Query: 252 FWKSTINDGKISVENLKKAFIIMRENRALVDTEYRAYSYGQKAKDSLRCLP--DSSWK 307
W S+ +D ++NL++ II V+ RA A S R P DS K
Sbjct: 2 GWVSSGSDNDDLIDNLRENKIIRTRR---VEQAMRATDRSDYAPRSERTNPYMDSPQK 56
>gnl|CDD|31750 COG1562, ERG9, Phytoene/squalene synthetase [Lipid metabolism].
Length = 288
Score = 27.2 bits (60), Expect = 6.7
Identities = 42/185 (22%), Positives = 61/185 (32%), Gaps = 39/185 (21%)
Query: 60 RGDNHVLLACAIEFIHTATLLHDDVVDDSALRRGKVAARLVW-----GNQTSVLVGDFLL 114
R L A E DDVVD + L W G+ + D +
Sbjct: 36 REAVWALYAFCREA--------DDVVDGVSDPDLPAEILLAWRRELDGDFSGQPASDHPV 87
Query: 115 SQAFCMVIETKSQEALEALSLVACTLAEGELRQLSLSKNLDVTE-EDYLHVIKSKTAVLF 173
A V L + A L + L ++ LD E E+Y + + +L
Sbjct: 88 LAALVEVARRF---GLPREAFPA--LIDAMRMDLDRTRYLDFEELEEYCYGVAGAVGLLL 142
Query: 174 SAALEVSSLIAGVQNSVRQALKSYGMNLGIAFQLVDDVLDYRGEVNEMGKNIGEDFRNGK 233
+ L A ++Y LG+A QLV+ + D GED R G+
Sbjct: 143 ARILGPDK---------DAATRAYARGLGLALQLVNILRDV-----------GEDRRRGR 182
Query: 234 PTLPV 238
LP
Sbjct: 183 VYLPA 187
>gnl|CDD|99750 cd06259, YdcF-like, YdcF-like. YdcF-like is a large family of
mainly bacterial proteins, with a few members found in
fungi, plants, and archaea. Escherichia coli YdcF has
been shown to bind S-adenosyl-L-methionine (AdoMet), but
a biochemical function has not been idenitified. The
family also includes Escherichia coli sanA and
Salmonella typhimurium sfiX, which are involved in
vancomycin resistance; sfiX may also be involved in
murein synthesis..
Length = 150
Score = 26.9 bits (60), Expect = 7.0
Identities = 20/92 (21%), Positives = 28/92 (30%), Gaps = 20/92 (21%)
Query: 34 VKYLIFSGGKRLRPMLTLATALMLEYRGDNHVLLACAI-----------EFIHTATLLHD 82
LI SGG+ + A A M Y + V A AI +A LL +
Sbjct: 35 APKLIVSGGQGPGEGYSEAEA-MARYLIELGV-PAEAILLEDRSTNTYENARFSAELLRE 92
Query: 83 D-------VVDDSALRRGKVAARLVWGNQTSV 107
V + R + R + V
Sbjct: 93 RGIRSVLLVTSAYHMPRALLIFRKAGLDVEVV 124
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
0.321 0.136 0.384
Gapped
Lambda K H
0.267 0.0607 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,690,029
Number of extensions: 188605
Number of successful extensions: 485
Number of sequences better than 10.0: 1
Number of HSP's gapped: 463
Number of HSP's successfully gapped: 31
Length of query: 322
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 228
Effective length of database: 4,232,491
Effective search space: 965007948
Effective search space used: 965007948
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: 57 (26.0 bits)