RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10545
(1428 letters)
>gnl|CDD|233988 TIGR02734, crtI_fam, phytoene desaturase. Phytoene is converted to
lycopene by desaturation at four (two symmetrical pairs
of) sites. This is achieved by two enzymes (crtP and
crtQ) in cyanobacteria (Gloeobacter being an exception)
and plants, but by a single enzyme in most other bacteria
and in fungi. This single enzyme is called the
bacterial-type phytoene desaturase, or CrtI. Most members
of this family, part of the larger Pfam family pfam01593,
which also contains amino oxidases, are CrtI itself; it
is likely that all members act on either phytoene or on
related compounds such as dehydrosqualene, for carotenoid
biosynthesis [Biosynthesis of cofactors, prosthetic
groups, and carriers, Other].
Length = 502
Score = 622 bits (1606), Expect = 0.0
Identities = 235/468 (50%), Positives = 321/468 (68%), Gaps = 4/468 (0%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYKQDGFIFDAGPTVITDPNSIKLLF 777
GAG GG+ALAIRL AGI ++EQRDKPGGRA V + DGF FD GPTVIT P +++ LF
Sbjct: 5 GAGFGGLALAIRLAAAGIPVTVVEQRDKPGGRAGVLEDDGFRFDTGPTVITMPEALEELF 64
Query: 778 DLSKNRMENYVNLLPIKPFYRLYWGKEKFLNYEDNIKDLEKQIAKFNLNDIKGYRLFLNY 837
L+ + +YV L+P+ PFYRL W L+ +++ ++LE QIA+FN D+ GYR FL+Y
Sbjct: 65 ALAGRDLADYVELVPLDPFYRLCWEDGSQLDVDNDQEELEAQIARFNPGDVAGYRRFLDY 124
Query: 838 SKKVFKEGYLSFASKSFLTINDML-FILPKLIKIKAWKSVYSIVSQFIKNDYLKQAFSFN 896
+++V++EGY FL+ D+L LP+L+ + AW+S+YS V++F ++ L+QAFSF+
Sbjct: 125 AERVYREGYRKLGYVPFLSPRDLLRADLPQLLALLAWRSLYSKVARFFSDERLRQAFSFH 184
Query: 897 SLFIGGNPFSTSSIYTLIHALEYEWGIWFPKGGVGALIKALIKLFQNLGGNLILNSQVIS 956
+LF+GGNPF T SIY LI ALE EWG+WFP+GG GAL+ A+ KL ++LGG L LN++VI
Sbjct: 185 ALFLGGNPFRTPSIYALISALEREWGVWFPRGGTGALVAAMAKLAEDLGGELRLNAEVIR 244
Query: 957 IYVNNNKVNKVHLKNGQIFDADIIVSNADIINTYRNLLGQYAFGKKKYMNLIKKKMSNSL 1016
I + VHL +G+ DAD +VSNAD+ +TYR LL + + L +K+ S SL
Sbjct: 245 IETEGGRATAVHLADGERLDADAVVSNADLHHTYRRLLPNHPRRRYPAARLSRKRPSPSL 304
Query: 1017 FVIYFGLS---EQYTHLAHHTIFFPSNYKKSIENIFGKNFSRDNLSIYLHSPSVTDLSLA 1073
FV+YFGL + LAHHT+ F YK+ + IF K ++ S+YLH P+VTD SLA
Sbjct: 305 FVLYFGLLGVDGHWPQLAHHTLCFGPRYKELFDEIFRKGRLAEDPSLYLHRPTVTDPSLA 364
Query: 1074 PTGCSTFYALIPVPNLSNSSINWSEESIKLKNIVFMYLEQYCIPNLRKKLITQRIFTPND 1133
P GC Y L PVP+L + ++WS E + ++ + YLE+ IP LR +++ +R FTP D
Sbjct: 365 PPGCENLYVLAPVPHLGTADVDWSVEGPRYRDRILAYLEERAIPGLRDRIVVERTFTPAD 424
Query: 1134 FKDVLGSYLGSAFSFAPLLTQSAWFRPHNRDKNLTNLYFVGAGTHPGA 1181
F+D ++LGSAFS LTQSAWFRPHNRD+ + NLY VGAGTHPGA
Sbjct: 425 FRDRYNAWLGSAFSLEHTLTQSAWFRPHNRDRKIDNLYLVGAGTHPGA 472
Score = 53.4 bits (129), Expect = 6e-07
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRDKL 346
GAG GG+ALAIRL AGI ++EQRDK
Sbjct: 5 GAGFGGLALAIRLAAAGIPVTVVEQRDKP 33
>gnl|CDD|130849 TIGR01789, lycopene_cycl, lycopene cyclase. This model represents
a family of bacterial lycopene cyclases catalyzing the
transformation of lycopene to carotene. These enzymes
are found in a limited spectrum of alpha and gamma
proteobacteria as well as Flavobacterium.
Length = 370
Score = 300 bits (770), Expect = 2e-91
Identities = 120/361 (33%), Positives = 192/361 (53%), Gaps = 15/361 (4%)
Query: 365 GLWNSIIAWYLKQYNPKLNVLLLELSSSVK-NHIWSFHQNDISSSQYMLIKPLITYSWPS 423
GL +IA L++ P + ++E ++ NH WSF +D+S +Q+ + L+ WP
Sbjct: 8 GLAGGLIALRLQRARPDFRIRVIEAGRTIGGNHTWSFFDSDLSDAQHAWLADLVQTDWPG 67
Query: 424 YQVKFPKFNRKIFSGYYSICSKHLNSYLIRALGINNFLFNNKTVEIITPTSIRINNKKII 483
Y+V+FPK+ RK+ + Y S+ S + L++A + + + + + I
Sbjct: 68 YEVRFPKYRRKLKTAYRSMTSTRFHEGLLQAFP--EGVILGRKAVGLDADGVDLAPGTRI 125
Query: 484 NANCIIDGRGLK-NSQFDGIYQIFLGQQWNLSSPHGLDIPIIMDATVNQKNDEYHFIYTL 542
NA +ID RG K ++ G +Q+FLG++ L PHGL+ PIIMDATV+Q Y F+Y L
Sbjct: 126 NARSVIDCRGFKPSAHLKGGFQVFLGREMRLQEPHGLENPIIMDATVDQLAG-YRFVYVL 184
Query: 543 PLTPNSLMIEDTRYTKKPFLKIDMLKKSIKDYAIKNRWKLKNIEREEIGSIPIALKNEK- 601
PL + L+IEDT Y P L + L + I YA N W+ R E G +P+ L +
Sbjct: 185 PLGSHDLLIEDTYYADDPLLDRNALSQRIDQYARANGWQNGTPVRHEQGVLPVLLGGDFS 244
Query: 602 --IIKFKKTICVGLRANLLHATTGYSLPIAIQLAENI-AKYSITTNQINSTVLFKLVKKF 658
+ + GLRA L H TTGYSLP+A++ A+ + A+ +++ Q+ + +
Sbjct: 245 AYQDEVRIVAIAGLRAGLTHPTTGYSLPVAVENADALAAQPDLSSEQLAAF-----IDSR 299
Query: 659 IINHQKKQRFFCMLNR-LFFLSNSRCHLDIMQYFYTLPDKIIRNFYANKLSFFDKIRIFS 717
H K ++ +LNR LFF + + + Q FY L + +I FYA + + FDK+R+
Sbjct: 300 ARRHWSKTGYYRLLNRMLFFAAKPEKRVRVFQRFYGLREGLIERFYAARSNTFDKLRVLW 359
Query: 718 G 718
G
Sbjct: 360 G 360
Score = 257 bits (659), Expect = 2e-76
Identities = 113/366 (30%), Positives = 174/366 (47%), Gaps = 63/366 (17%)
Query: 10 DFILIGAGLWNSIIAWYLKQYNPKLNVLLLELSSSVK-NHIWSFHQTVLSSSQYMLIKPL 68
D I++G GL +IA L++ P + ++E ++ NH WSF + LS +Q+ + L
Sbjct: 1 DCIIVGGGLAGGLIALRLQRARPDFRIRVIEAGRTIGGNHTWSFFDSDLSDAQHAWLADL 60
Query: 69 ITYSWPSYQVKFPKFNRKIFSGYYSICSKHLNSYL------------------------- 103
+ WP Y+V+FPK+ RK+ + Y S+ S + L
Sbjct: 61 VQTDWPGYEVRFPKYRRKLKTAYRSMTSTRFHEGLLQAFPEGVILGRKAVGLDADGVDLA 120
Query: 104 ----IRA----------------------LGQQWNLSSPHGLDIPIIMDATVNQKNDEYH 137
I A LG++ L PHGL+ PIIMDATV+Q Y
Sbjct: 121 PGTRINARSVIDCRGFKPSAHLKGGFQVFLGREMRLQEPHGLENPIIMDATVDQLAG-YR 179
Query: 138 FIYTLPLTPNSLMIEDTRYTKKPFLKIDMLKKSIKDYAIKNRWKLKNIEREEIGSIPIAL 197
F+Y LPL + L+IEDT Y P L + L + I YA N W+ R E G +P+ L
Sbjct: 180 FVYVLPLGSHDLLIEDTYYADDPLLDRNALSQRIDQYARANGWQNGTPVRHEQGVLPVLL 239
Query: 198 KNEK---IIKFKKTICVGLRANLLHATTGYSLPIAIQLAENI-AKYSITTNQINSTVLFK 253
+ + + GLRA L H TTGYSLP+A++ A+ + A+ +++ Q+ +
Sbjct: 240 GGDFSAYQDEVRIVAIAGLRAGLTHPTTGYSLPVAVENADALAAQPDLSSEQLAAF---- 295
Query: 254 LVKKFIINHQKKQRFFCMLNR-LFFLSNSRCHLDIMQYFYTLPDKIIRNFYANKLSFFDK 312
+ H K ++ +LNR LFF + + + Q FY L + +I FYA + + FDK
Sbjct: 296 -IDSRARRHWSKTGYYRLLNRMLFFAAKPEKRVRVFQRFYGLREGLIERFYAARSNTFDK 354
Query: 313 IRIFSG 318
+R+ G
Sbjct: 355 LRVLWG 360
>gnl|CDD|224154 COG1233, COG1233, Phytoene dehydrogenase and related proteins
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 487
Score = 301 bits (773), Expect = 3e-90
Identities = 131/468 (27%), Positives = 221/468 (47%), Gaps = 18/468 (3%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYKQDGFIFDAGPTVITDPNSIKLLF 777
GAG+ G+A A L AG+ +LE+ D+ GGRA ++ DGF FD GP+ P+ L
Sbjct: 10 GAGLNGLAAAALLARAGLKVTVLEKNDRVGGRARTFELDGFRFDTGPSWYLMPDPGPLFR 69
Query: 778 DLSKNRMENY-VNLLPIKPFYRLYWGKEKFLNYEDNIKDLEKQIAKFNLNDIKGYRLFLN 836
+L ++ ++LLP P YR++ ++ +++ + + D + +L
Sbjct: 70 EL--GNLDADGLDLLPPDPAYRVFLPDGDAIDVYTDLEATAELLESLEPGDGEALARYLR 127
Query: 837 YSKKVFKEGYLSFASKSFLTINDMLFILPKLIKIKAWK--SVYSIVSQFIKNDYLKQAFS 894
++++ + + + +L+++ + S ++ L+ +
Sbjct: 128 LLARLYELLAALLLAPPRSELLLVPDTPERLLRLLGFSLTSALDFFRGRFGSELLRALLA 187
Query: 895 FNSLFIGGNPFSTSSIYTLIHALEYEWGIWFPKGGVGALIKALIKLFQNLGGNLILNSQV 954
+++++ G P + ++Y L+ L G+++P+GG+GAL+ AL +L + GG + ++V
Sbjct: 188 YSAVYGGAPPSTPPALYLLLSHLGLSGGVFYPRGGMGALVDALAELAREHGGEIRTGAEV 247
Query: 955 ISIYVNNNKVNKVHLKNGQIFDADIIVSNADIINTYRNLLGQYAFGKKKYMNLIKKKMSN 1014
I V K V +G+ +AD +VSNAD LLG+ ++ S
Sbjct: 248 SQILVEGGKGVGVRTSDGENIEADAVVSNAD-PALLARLLGEA----RRPRYRGSYLKSL 302
Query: 1015 SLFVIYFGLSEQYTHLAHHTIFFPSNYKKSIENIFGKNFSRDNLSIYLHSPSVTDLSLAP 1074
S +Y GL LAHHT + ++ IE F R +Y+ PS+TD SLAP
Sbjct: 303 SALSLYLGLKGDLLPLAHHTTILLGDTREQIEEAFDDRAGRP-PPLYVSIPSLTDPSLAP 361
Query: 1075 TG-CSTFYALIPVPNLSNSSINWSEESIKLKNIVFMYLEQYCIPNLRKKLITQRIFTPND 1133
G STF L+PVP S ++ E L + + LE+ P LR +++ + + TP D
Sbjct: 362 EGKHSTFAQLVPVP----SLGDYDELKESLADAIDA-LEEL-APGLRDRIVAREVLTPLD 415
Query: 1134 FKDVLGSYLGSAFSFAPLLTQSAWFRPHNRDKNLTNLYFVGAGTHPGA 1181
+ LG G F A L Q FRP + + LY VGA THPG
Sbjct: 416 LERYLGLPGGDIFGGAHTLDQLGPFRPPPKSTPIKGLYLVGASTHPGG 463
Score = 41.3 bits (97), Expect = 0.003
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRD 344
GAG+ G+A A L AG+ +LE+ D
Sbjct: 10 GAGLNGLAAAALLARAGLKVTVLEKND 36
>gnl|CDD|218770 pfam05834, Lycopene_cycl, Lycopene cyclase protein. This family
consists of lycopene beta and epsilon cyclase proteins.
Carotenoids with cyclic end groups are essential
components of the photosynthetic membranes in all
plants, algae, and cyanobacteria. These lipid-soluble
compounds protect against photo-oxidation, harvest light
for photosynthesis, and dissipate excess light energy
absorbed by the antenna pigments. The cyclisation of
lycopene (psi, psi-carotene) is a key branch point in
the pathway of carotenoid biosynthesis. Two types of
cyclic end groups are found in higher plant carotenoids:
the beta and epsilon rings. Carotenoids with two beta
rings are ubiquitous, and those with one beta and one
epsilon ring are common; however, carotenoids with two
epsilon rings are rare.
Length = 374
Score = 263 bits (674), Expect = 2e-78
Identities = 121/368 (32%), Positives = 182/368 (49%), Gaps = 26/368 (7%)
Query: 365 GLWNSIIAWYLKQYNPKLNVLLLELSSSVK---NHIWSFHQNDISSSQYMLIKPLITYSW 421
GL ++A L+Q P L VLL++ NH WS D+ + P + +SW
Sbjct: 8 GLAGLLLALRLRQARPGLRVLLIDAGPGPPFPNNHTWSDEFEDLGP-----LAPCVEHSW 62
Query: 422 PSYQVKFPKFNRKIFS-GYYSICSKHLNSYLIRALGINNFLFNNKTVEIITPTS----IR 476
P Y+V+FP RK+ GY + S L+ L+R N + N V + +
Sbjct: 63 PGYEVRFPDGRRKLIGRGYGRVSSDRLHEELLRRCAENGVIRLNAKVASVDAEPVESLVV 122
Query: 477 INNKKIINANCIIDGRGLK-NSQFDGIYQIFLGQQWNLSSP-HGLDIPIIMDATVNQKND 534
+ + + I A +ID RG + YQ F G + + +P H D+P+IMDA V Q
Sbjct: 123 LEDGRTIRARLVIDARGASPSGALTVGYQTFYGVEVEVDNPPHDPDVPVIMDARVPQPAK 182
Query: 535 EYHFIYTLPLTPNSLMIEDTRYTKKPFLKIDMLKKSIKDYAIKNRWKLKNIEREEIGSIP 594
Y F+Y LPL+P L+IEDT Y P L D LK+ + DYA W++ +EREE G IP
Sbjct: 183 GYRFLYVLPLSPTRLLIEDTCYADGPALPFDALKQRLMDYARALGWRILEVEREEQGVIP 242
Query: 595 IALKNEKIIKFKKTICVGLRANLLHATTGYSLPIAIQLAENIAKYSITTNQINSTVLFKL 654
+ L + ++K + +G A L+H +TGYS+P A+ LA IA + + I+ L
Sbjct: 243 MTLGGDLPATWQKVLRIGAAAGLVHPSTGYSVPRALALAPAIAAI-LRLSSISLRAWITL 301
Query: 655 VKKFIINHQKKQRFFCMLNRLFFLSNSRCHLD----IMQYFYTLPDKIIRNFYANKLSFF 710
+ +++ FF +L R+ FL+ + Q FY LP+ +I F A +LS
Sbjct: 302 ---WARERWRQRGFFRLLGRMLFLA---GDPEGRRRFFQRFYRLPEWLIERFLAGRLSLA 355
Query: 711 DKIRIFSG 718
D +RI G
Sbjct: 356 DLLRIGLG 363
Score = 184 bits (468), Expect = 1e-50
Identities = 80/228 (35%), Positives = 118/228 (51%), Gaps = 12/228 (5%)
Query: 96 SKHLNSYLIRALGQQWNLSSP-HGLDIPIIMDATVNQKNDEYHFIYTLPLTPNSLMIEDT 154
S L G + + +P H D+P+IMDA V Q Y F+Y LPL+P L+IEDT
Sbjct: 143 SGALTVGYQTFYGVEVEVDNPPHDPDVPVIMDARVPQPAKGYRFLYVLPLSPTRLLIEDT 202
Query: 155 RYTKKPFLKIDMLKKSIKDYAIKNRWKLKNIEREEIGSIPIALKNEKIIKFKKTICVGLR 214
Y P L D LK+ + DYA W++ +EREE G IP+ L + ++K + +G
Sbjct: 203 CYADGPALPFDALKQRLMDYARALGWRILEVEREEQGVIPMTLGGDLPATWQKVLRIGAA 262
Query: 215 ANLLHATTGYSLPIAIQLAENIAKYSITTNQINSTVLFKLVKKFIINHQKKQRFFCMLNR 274
A L+H +TGYS+P A+ LA IA + + I+ L + +++ FF +L R
Sbjct: 263 AGLVHPSTGYSVPRALALAPAIAAI-LRLSSISLRAWITL---WARERWRQRGFFRLLGR 318
Query: 275 LFFLSNSRCHLD----IMQYFYTLPDKIIRNFYANKLSFFDKIRIFSG 318
+ FL+ + Q FY LP+ +I F A +LS D +RI G
Sbjct: 319 MLFLA---GDPEGRRRFFQRFYRLPEWLIERFLAGRLSLADLLRIGLG 363
Score = 78.5 bits (194), Expect = 5e-15
Identities = 37/124 (29%), Positives = 57/124 (45%), Gaps = 19/124 (15%)
Query: 10 DFILIGAGLWNSIIAWYLKQYNPKLNVLLLELSSSVK---NHIWSFHQTVLSSSQYMLIK 66
D +++GAGL ++A L+Q P L VLL++ NH WS L +
Sbjct: 1 DLVIVGAGLAGLLLALRLRQARPGLRVLLIDAGPGPPFPNNHTWSDEFEDLGP-----LA 55
Query: 67 PLITYSWPSYQVKFPKFNRKIFS-GYYSICSKHLNSYLIRALGQQWNLSSPHGLDIPIIM 125
P + +SWP Y+V+FP RK+ GY + S L+ L+R + I +
Sbjct: 56 PCVEHSWPGYEVRFPDGRRKLIGRGYGRVSSDRLHEELLRRCA-----ENGV-----IRL 105
Query: 126 DATV 129
+A V
Sbjct: 106 NAKV 109
>gnl|CDD|173831 cd00683, Trans_IPPS_HH, Trans-Isoprenyl Diphosphate Synthases,
head-to-head. These trans-Isoprenyl Diphosphate
Synthases (Trans_IPPS) catalyze a head-to-head (HH)
(1'-1) condensation reaction. This CD includes squalene
and phytoene synthases which catalyze the 1'-1
condensation of two 15-carbon (farnesyl) and 20-carbon
(geranylgeranyl) isoprenyl diphosphates, respectively.
The catalytic site consists of a large central cavity
formed by mostly antiparallel alpha helices with two
aspartate-rich regions (DXXXD) located on opposite walls.
These residues mediate binding of prenyl phosphates. A
two-step reaction has been proposed for squalene synthase
(farnesyl-diphosphate farnesyltransferase) in which, two
molecules of FPP react to form a stable
cyclopropylcarbinyl diphosphate intermediate, and then
the intermediate undergoes heterolysis, isomerization,
and reduction with NADPH to form squalene, a precursor of
cholestrol. The carotenoid biosynthesis enzyme, phytoene
synthase (CrtB), catalyzes the condensation reaction of
two molecules of geranylgeranyl diphosphate to produce
phytoene, a precursor of beta-carotene. These enzymes
produce the triterpene and tetraterpene precursors for
many diverse sterol and carotenoid end products and are
widely distributed among eukareya, bacteria, and archaea.
Length = 265
Score = 210 bits (537), Expect = 3e-61
Identities = 83/253 (32%), Positives = 119/253 (47%), Gaps = 15/253 (5%)
Query: 1180 GAANKIIKAGSKSFSSAIKLFDPVIRYKVLMLYAWCRYCDDVIDNQICGNRSKFLKKNVS 1239
I++ GS+SF A +L P +R V LYA+CR DD++D+
Sbjct: 1 AYCRAILRKGSRSFYLASRLLPPELRRAVCALYAFCRAADDIVDDP-----------AAP 49
Query: 1240 MKHKLKIL---RIKTKRACIGFKMKEPAFLALQKIISIHSFPVHLLFEHLDGFEMDVMER 1296
KL +L R + A G P AL + + P + L G MD+ +R
Sbjct: 50 PDEKLALLDAFRAELDAAYWGGAPTHPVLRALADLARRYGIPREPFRDLLAGMAMDLDKR 109
Query: 1297 TYITLDETLGYCYHVAGTIGLIIAHLIGVKEK-DTLNCARNLGIAFQLTNISRDVIDDFY 1355
Y TLDE YCY+VAG +GL++ + G L AR LG+A QLTNI RDV +D
Sbjct: 110 RYETLDELDEYCYYVAGVVGLMLLRVFGASSDEAALERARALGLALQLTNILRDVGEDAR 169
Query: 1356 VGRCYLPLDWLRNEGLNKSNFVLAENRKKLFKVVTRILDVAEFYYSSSLVKLNTLPLRST 1415
GR YLP + L G+ + + EN ++ R++ A +Y +L L LP RS
Sbjct: 170 RGRIYLPREELARFGVTLEDLLAPENSPAFRALLRRLIARARAHYREALAGLAALPRRSR 229
Query: 1416 LAIVTSWSIYREI 1428
+ + +YR I
Sbjct: 230 FCVRAAAMLYRTI 242
>gnl|CDD|130850 TIGR01790, carotene-cycl, lycopene cyclase family protein. This
family includes lycopene beta and epsilion cyclases
(which form beta and delta carotene, respectively) from
bacteria and plants as well as the plant
capsanthin/capsorubin and neoxanthin cyclases which
appear to have evolved from the plant lycopene cyclases.
The plant lycopene epsilon cyclases also transform
neurosporene to alpha zeacarotene.
Length = 388
Score = 212 bits (542), Expect = 2e-60
Identities = 96/376 (25%), Positives = 159/376 (42%), Gaps = 32/376 (8%)
Query: 365 GLWNSIIAWYLKQYNPKLNVLLLELSSSVK-NHIWSFHQNDISSSQYMLIKPLITYSWP- 422
G IA L + P L V L+E + NH + +D+S + + + WP
Sbjct: 8 GPAGLAIALELAR--PGLRVQLIEPHPPIPGNHTYGVWDDDLSDLG---LADCVEHVWPD 62
Query: 423 SYQVKFPKFNRKIFSGYYSICSKHLNSYLIRALGINNFLF-NNKTVEIITPTS----IRI 477
Y+ +FPK RK+ + Y S+ S L+ L++ L+ K + +
Sbjct: 63 VYEYRFPKQPRKLGTAYGSVDSTRLHEELLQKCPEGGVLWLERKAIHAEADGVALSTVYC 122
Query: 478 NNKKIINANCIIDGRGLK------NSQFDGIYQIFLGQQWNLSS-PHGLDIPIIMDATVN 530
+ I A +ID RG + +Q+ G + LS PHG +IMDA V+
Sbjct: 123 AGGQRIQARLVIDARGFGPLVQYVRFPLNVGFQVAYGVEARLSRPPHGPSSMVIMDARVD 182
Query: 531 QKND------EYHFIYTLPLTPNSLMIEDTRYTKKPFLKIDMLKKSIKDYAIKNRWKLKN 584
Q F+Y +PL + IE+T +P L D L++ I W++K
Sbjct: 183 QLAAPELKGYRPTFLYAMPLGSTRVFIEETSLADRPALPRDRLRQRILARLNAQGWQIKT 242
Query: 585 IEREEIGSIPI--ALKNEKIIKFKKTICVGLRANLLHATTGYSLPIAIQLAENIAKYSIT 642
IE EE G++P+ ++ G A ++H TTGYS+ A+ A +A
Sbjct: 243 IEEEEWGALPVGLPGPFLP----QRVAAFGAAAGMVHPTTGYSVARALSDAPGLAAAIAQ 298
Query: 643 TNQINSTVLFKLVKKFIINHQKKQRFFCMLNRLFFLSNSRCHL-DIMQYFYTLPDKIIRN 701
+S + +++QR+F +L R+ FL+ Q F+ LP+++
Sbjct: 299 ALCQSSELATAAWDGLWPTERRRQRYFRLLGRMLFLALEPEERRRFFQRFFGLPEELWER 358
Query: 702 FYANKLSFFDKIRIFS 717
F A +LS D +R+
Sbjct: 359 FLAARLSLPDLLRVLL 374
Score = 154 bits (392), Expect = 1e-40
Identities = 65/240 (27%), Positives = 103/240 (42%), Gaps = 14/240 (5%)
Query: 88 FSGYYSICSKHLNSYLIRALGQQWNLSS-PHGLDIPIIMDATVNQKND------EYHFIY 140
F LN A G + LS PHG +IMDA V+Q F+Y
Sbjct: 139 FGPLVQYVRFPLNVGFQVAYGVEARLSRPPHGPSSMVIMDARVDQLAAPELKGYRPTFLY 198
Query: 141 TLPLTPNSLMIEDTRYTKKPFLKIDMLKKSIKDYAIKNRWKLKNIEREEIGSIPI--ALK 198
+PL + IE+T +P L D L++ I W++K IE EE G++P+
Sbjct: 199 AMPLGSTRVFIEETSLADRPALPRDRLRQRILARLNAQGWQIKTIEEEEWGALPVGLPGP 258
Query: 199 NEKIIKFKKTICVGLRANLLHATTGYSLPIAIQLAENIAKYSITTNQINSTVLFKLVKKF 258
++ G A ++H TTGYS+ A+ A +A +S +
Sbjct: 259 FLP----QRVAAFGAAAGMVHPTTGYSVARALSDAPGLAAAIAQALCQSSELATAAWDGL 314
Query: 259 IINHQKKQRFFCMLNRLFFLSNSRCHL-DIMQYFYTLPDKIIRNFYANKLSFFDKIRIFS 317
+++QR+F +L R+ FL+ Q F+ LP+++ F A +LS D +R+
Sbjct: 315 WPTERRRQRYFRLLGRMLFLALEPEERRRFFQRFFGLPEELWERFLAARLSLPDLLRVLL 374
Score = 61.3 bits (149), Expect = 1e-09
Identities = 29/102 (28%), Positives = 46/102 (45%), Gaps = 7/102 (6%)
Query: 10 DFILIGAGLWNSIIAWYLKQYNPKLNVLLLELSSSVK-NHIWSFHQTVLSSSQYMLIKPL 68
D +IG G IA L + P L V L+E + NH + LS +
Sbjct: 1 DLAVIGGGPAGLAIALELAR--PGLRVQLIEPHPPIPGNHTYGVWDDDLSDLG---LADC 55
Query: 69 ITYSWP-SYQVKFPKFNRKIFSGYYSICSKHLNSYLIRALGQ 109
+ + WP Y+ +FPK RK+ + Y S+ S L+ L++ +
Sbjct: 56 VEHVWPDVYEYRFPKQPRKLGTAYGSVDSTRLHEELLQKCPE 97
>gnl|CDD|215948 pfam00494, SQS_PSY, Squalene/phytoene synthase.
Length = 262
Score = 192 bits (489), Expect = 7e-55
Identities = 77/251 (30%), Positives = 116/251 (46%), Gaps = 19/251 (7%)
Query: 1186 IKAGSKSFSSAIKLFDPVIRYKVLMLYAWCRYCDDVIDNQICGNRSKFLKKNVSMKHKLK 1245
++ S+SF A L P +R V LYA+CR DD++D + + + +
Sbjct: 1 LRKHSRSFYLASLLLPPELRRAVAALYAFCREADDIVDE-----------VSDPLIGRAR 49
Query: 1246 ILRI-----KTKRACIGFKMKEPAFLALQKIISIHSFPVHLLFEHLDGFEMDVMERTYIT 1300
+ P AL + + P E +DG EMD+ + Y T
Sbjct: 50 LDWWRDALDAAFAGRRLGPSTHPVLRALADTVRRYGLPREPFLELIDGMEMDLEKDRYET 109
Query: 1301 LDETLGYCYHVAGTIGLIIAHLIGV--KEKDTLNCARNLGIAFQLTNISRDVIDDFYVGR 1358
L E YCY VAG +GL++ L+GV L AR+LGIA QLTNI RDV +D GR
Sbjct: 110 LAELEEYCYRVAGVVGLLLLRLLGVRDDAAAALEAARHLGIALQLTNILRDVGEDARRGR 169
Query: 1359 CYLPLDWLRNEGLNKSNFVLAENRKKLFKVVTRILDVAEFYYSSSLVKLNTL-PLRSTLA 1417
YLP DWL G++ + + L ++ + A + + + L L P R+ LA
Sbjct: 170 VYLPADWLARFGVSPEDLLRGRPSPALRALIRELAARARAHLAEARALLALLPPRRARLA 229
Query: 1418 IVTSWSIYREI 1428
++ + ++YR I
Sbjct: 230 VLLAAALYRAI 240
>gnl|CDD|163278 TIGR03465, HpnD, squalene synthase HpnD. The genes of this family
are often found in the same genetic locus with
squalene-hopene cyclase genes, and are never associated
with genes for the metabolism of phytoene. In the
organisms Zymomonas mobilis and Bradyrhizobium japonicum
these genes have been characterized as squalene synthases
(farnesyl-pyrophosphate ligases). Often, these genes
appear in tandem with the HpnC gene which appears to have
resulted from an ancient gene duplication event.
Presumably these proteins form a heteromeric complex, but
this has not yet been experimentally demonstrated.
Length = 266
Score = 130 bits (329), Expect = 2e-33
Identities = 70/247 (28%), Positives = 104/247 (42%), Gaps = 23/247 (9%)
Query: 1188 AGSKSFSSAIKLFDPVIRYKVLMLYAWCRYCDDVIDNQICGNRSKFLKKNVSMKH-KL-- 1244
+GS SF ++L P R + LYA+CR DD++D + + KL
Sbjct: 4 SGS-SFYYGMRLLPPERRRAMTALYAFCREVDDIVDE--DSDPE--------VAQAKLAW 52
Query: 1245 ---KILRIKTKRACIGFKMKEPAFLALQKIISIHSFPVHLLFEHLDGFEMDVMERTYITL 1301
+I R+ P AL P E +DG EMD+ + Y
Sbjct: 53 WRAEIDRLYAGAPS------HPVARALADPARRFDLPQEDFLEVIDGMEMDLEQTRYPDF 106
Query: 1302 DETLGYCYHVAGTIGLIIAHLIGVKEKDTLNCARNLGIAFQLTNISRDVIDDFYVGRCYL 1361
E YC VAG +G + A + G + TL A +LG A QLTNI RDV +D GR YL
Sbjct: 107 AELDLYCDRVAGAVGRLSARIFGATDARTLEYAHHLGRALQLTNILRDVGEDARRGRIYL 166
Query: 1362 PLDWLRNEGLNKSNFVLAENRKKLFKVVTRILDVAEFYYSSSLVKLNTLPLRSTLAIVTS 1421
P + L+ G+ ++ + L + + A +Y+ + L R+ A
Sbjct: 167 PAEELQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADALLPACDRRAQRAARAM 226
Query: 1422 WSIYREI 1428
+IYR +
Sbjct: 227 AAIYRAL 233
>gnl|CDD|224478 COG1562, ERG9, Phytoene/squalene synthetase [Lipid metabolism].
Length = 288
Score = 126 bits (319), Expect = 6e-32
Identities = 70/247 (28%), Positives = 112/247 (45%), Gaps = 11/247 (4%)
Query: 1184 KIIKAGSKSFSSAIKLFDPVIRYKVLMLYAWCRYCDDVIDNQICGNRSKFLKKNVSMKHK 1243
I++ S++F AI L P R V LYA+CR DDV+D +
Sbjct: 15 DILRETSRTFYLAILLLPPEKREAVWALYAFCREADDVVDG--VSDPDL-------PAEI 65
Query: 1244 LKILRIKTKRACIGFKMKEPAFL-ALQKIISIHSFPVHLLFEHLDGFEMDVMERTYITLD 1302
L R + G + L AL ++ P +D MD+ Y+ +
Sbjct: 66 LLAWRRELDGDFSGQPASDHPVLAALVEVARRFGLPREAFPALIDAMRMDLDRTRYLDFE 125
Query: 1303 ETLGYCYHVAGTIGLIIAHLIGVKEKD-TLNCARNLGIAFQLTNISRDVIDDFYVGRCYL 1361
E YCY VAG +GL++A ++G + T AR LG+A QL NI RDV +D GR YL
Sbjct: 126 ELEEYCYGVAGAVGLLLARILGPDKDAATRAYARGLGLALQLVNILRDVGEDRRRGRVYL 185
Query: 1362 PLDWLRNEGLNKSNFVLAENRKKLFKVVTRILDVAEFYYSSSLVKLNTLPLRSTLAIVTS 1421
P + L G+++++ + +++ D A + + + L LP R+ LA++ +
Sbjct: 186 PAEELARFGVSEADLLAGRVDDAFRELMRFEADRARDHLAEARRGLPALPGRAQLAVLAA 245
Query: 1422 WSIYREI 1428
+Y +
Sbjct: 246 ALLYAYL 252
>gnl|CDD|216593 pfam01593, Amino_oxidase, Flavin containing amine oxidoreductase.
This family consists of various amine oxidases, including
maze polyamine oxidase (PAO) and various flavin
containing monoamine oxidases (MAO). The aligned region
includes the flavin binding site of these enzymes. The
family also contains phytoene dehydrogenases and related
enzymes. In vertebrates MAO plays an important role
regulating the intracellular levels of amines via there
oxidation; these include various neurotransmitters,
neurotoxins and trace amines. In lower eukaryotes such as
aspergillus and in bacteria the main role of amine
oxidases is to provide a source of ammonium. PAOs in
plants, bacteria and protozoa oxidase spermidine and
spermine to an aminobutyral, diaminopropane and hydrogen
peroxide and are involved in the catabolism of
polyamines. Other members of this family include
tryptophan 2-monooxygenase, putrescine oxidase,
corticosteroid binding proteins and antibacterial
glycoproteins.
Length = 444
Score = 110 bits (276), Expect = 3e-25
Identities = 91/479 (18%), Positives = 160/479 (33%), Gaps = 74/479 (15%)
Query: 721 IGGIALAIRLQTAGISTIILEQRDKPGGRAYVYKQDGFIFDAGPTVITDPNSIKLLFDLS 780
+ G+A A L AG +LE RD+ GGR + DGF+ + G L
Sbjct: 1 LAGLAAARELLRAGFDVTVLEARDRVGGRIRTVRFDGFLIELGAQWFHGAYPNLL----- 55
Query: 781 KNRMENYVN----LLPIKPFYRLYWGKEKFLNYEDNIKDLEKQIAKFNLNDIKGYRLFLN 836
N + LL P K + Y D DL R L
Sbjct: 56 -NLLLELGLELGLLLFPFPGDPFVRLKYRGGPYPDLPGDL-------PPPLFLLLRSLLE 107
Query: 837 YSKKVFKEGYLSFASKSFLTINDMLFILPKLIKIKAWKS---VYSIVSQFIKNDYLKQAF 893
++ L + +L + P+L+++ + + + + +
Sbjct: 108 LE-----LSLEEPIRRALLLLVALLLLAPELLELDLLSFSDLLSAAGFLELFLLLFR-SL 161
Query: 894 SFNSLFIGGNPFSTSSIYTLIHALEYE-WGIWFPKGG----VGALIKALIKLFQNLGGNL 948
+L S + + E G+ FP GG +G L + + LGG +
Sbjct: 162 LAGALGFLPLELSARLALLSLRLFDLEDGGVVFPGGGFTLPLGGLPQLIAAALGLLGGRV 221
Query: 949 ILNSQVISIYVNNNKVNKVHLKNGQIFDADIIVSNADIINTYRNLLGQYAFGKKKYMNLI 1008
LN++V SI + + V V +G+ +AD ++ + R L K +
Sbjct: 222 RLNTRVRSITKSGDGV-TVTTVDGRTIEADAVIVTVPLGVLKRILFLP-PLPAAKQEAIR 279
Query: 1009 KKKMSNSLFVIYFGLSEQYTHLAHHTIFFPSNYKKSIENIFGKNFSRDN-LSIYLHSPSV 1067
+ V ++ T F+P N ++FG + Y+ S
Sbjct: 280 NLGFGSVSKVFL-----EFE-----TPFWPEN-----GDLFGLLVTDGLSRGGYVLDTSP 324
Query: 1068 TDLSLAPTGCSTFYALIPVPNLSNSSINWSEESIKLKNIVFMYLEQYCIPNLRKKLITQR 1127
+ S S L +++ + S + L + + +LRK L +
Sbjct: 325 SSGSGRGVLLSYV--------LGDAARELEDLSDEE-------LLEAVLRDLRKLLGPED 369
Query: 1128 IFTPNDFKDVLGS------YLGSAFSFAPLLTQSAWFRPHNRDKNLTNLYFVGAGTHPG 1180
+ P + L S Y ++S+ P+ + +RP R L+F G T G
Sbjct: 370 VPDP---VNFLVSDWHTDPYARGSYSYPPVG-DDSRYRPALRTPVGPGLFFAGEHTSGG 424
Score = 34.5 bits (79), Expect = 0.47
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 321 IGGIALAIRLQTAGISTIILEQRDKL 346
+ G+A A L AG +LE RD++
Sbjct: 1 LAGLAAARELLRAGFDVTVLEARDRV 26
>gnl|CDD|215339 PLN02632, PLN02632, phytoene synthase.
Length = 334
Score = 100 bits (250), Expect = 2e-22
Identities = 70/261 (26%), Positives = 111/261 (42%), Gaps = 30/261 (11%)
Query: 1181 AANKIIKAGSKSFSSAIKLFDPVIRYKVLMLYAWCRYCDDVIDNQICGNRSKFLKKNVSM 1240
++ +K+F L P R + +Y WCR D+++D N S
Sbjct: 51 RCGEVCAEYAKTFYLGTLLMTPERRKAIWAIYVWCRRTDELVDG-----------PNASH 99
Query: 1241 KHKLKILRIKTK-RACIGFKMKEPAFLALQKIISIHSFPVHL--LFEHLDGFEMDVMERT 1297
+ R + + + + AL +S FP+ + + ++G MD+++
Sbjct: 100 ITPAALDRWEARLEDLFDGRPYDMLDAALADTVS--KFPLDIQPFRDMIEGMRMDLVKSR 157
Query: 1298 YITLDETLGYCYHVAGTIGLI------IAHLIGVKEKDTLNCARNLGIAFQLTNISRDVI 1351
Y DE YCY+VAGT+GL+ IA + N A LGIA QLTNI RDV
Sbjct: 158 YENFDELYLYCYYVAGTVGLMSVPVMGIAPESKASTESVYNAALALGIANQLTNILRDVG 217
Query: 1352 DDFYVGRCYLPLDWLRNEGLNKSNF---VLAENRKKLFKV-VTRILDVAEFYYSSSLVKL 1407
+D GR YLP D L GL + + + + K + R A Y++ + +
Sbjct: 218 EDARRGRVYLPQDELAQFGLTDEDIFAGKVTDKWRAFMKFQIKR----ARMYFAEAEEGV 273
Query: 1408 NTLPLRSTLAIVTSWSIYREI 1428
+ L S + S +YR+I
Sbjct: 274 SELDPASRWPVWASLLLYRQI 294
>gnl|CDD|131777 TIGR02730, carot_isom, carotene isomerase. Members of this family,
including sll0033 (crtH) of Synechocystis sp. PCC 6803,
catalyze a cis-trans isomerization of carotenes to the
all-trans lycopene, a reaction that can also occur
non-enzymatically in light through photoisomerization
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 493
Score = 102 bits (255), Expect = 3e-22
Identities = 119/512 (23%), Positives = 205/512 (40%), Gaps = 82/512 (16%)
Query: 710 FDKIRIFSGAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYKQDGFIFDAGPTVITD 769
+D I I G+GIGG+ A +L G ++LE+ PGG A ++++G+ FD G ++I
Sbjct: 1 YDAIVI--GSGIGGLVTATQLAVKGAKVLVLERYLIPGGSAGYFEREGYRFDVGASMI-- 56
Query: 770 PNSIKLLFDLSKNRMENYVNLL----------------PIKPFYRLYWGKEKFLN--YED 811
F + NLL P++ Y L G ++ Y+D
Sbjct: 57 -------FGFGD---KGTTNLLTRALAAVGRKLETIPDPVQIHYHLPNGLNVKVHREYDD 106
Query: 812 NIKDLEKQIAKFNLNDIKGYRLFLNYSKKVFKEGYLSFASKSFLTINDMLFILPKLIK-- 869
I++L +AKF ++ +G R F + +VF S L++ + ++ K
Sbjct: 107 FIQEL---VAKFP-HEKEGIRRFYDECWQVFN----CLNSMELLSLEEPRYLFRVFFKHP 158
Query: 870 -----IKAW--KSVYSIVSQFIKN-DYLK----QAFSFNSLFIGGNPFSTSSIYTLIHAL 917
+ + ++ I ++I++ LK + F ++ + P + ++ +
Sbjct: 159 LACLGLAKYLPQNAGDIARRYIRDPGLLKFIDIECFCWSVVPADQTPMINAG---MVFSD 215
Query: 918 EYEWGIWFPKGGVGALIKALIKLFQNLGGNLILNSQVISIYVNNNKVNKVHLKNGQIFDA 977
+ GI +PKGGVG + ++L+K + GG + ++V I + N K V L +G+ A
Sbjct: 216 RHYGGINYPKGGVGQIAESLVKGLEKHGGQIRYRARVTKIILENGKAVGVKLADGEKIYA 275
Query: 978 DIIVSNADIINTYRNLLGQYAFGKKKYMNLIKKKMSNSLFVIYFGLSE----QYTHLAHH 1033
IVSNA +T+ LL KK+ S S ++ G+ T HH
Sbjct: 276 KRIVSNATRWDTFGKLLKAENLPKKEKNWQRNYVKSPSFLSLHLGVKADVLPPGTE-CHH 334
Query: 1034 TIFFPSNYKKSIENIFGKNFSRDNLSIYLHSPSVTDLSLAPTGCSTFYALIPV-----PN 1088
+ N + +I++ P++ D SLAP G + P
Sbjct: 335 ILLEDWT-----------NLEKPQGTIFVSIPTLLDPSLAPEGHHIIHTFTPSSMEDWQG 383
Query: 1089 LSNSSINWSEESIKLKNIVFMYLEQYCIPNLRKKLITQRIFTPNDFKDVLGSYLGSAFSF 1148
LS +E+ + I LE+ P L + + + TP + LG G+
Sbjct: 384 LSPKDYEAKKEADAERII--DRLEK-IFPGLDSAIDYKEVGTPRTHRRFLGRDSGTYGPI 440
Query: 1149 APLLTQSAWFRPHNRDKNLTNLYFVGAGTHPG 1180
P NR + LY VG PG
Sbjct: 441 PRRTLPGLLPMPFNR-TAIPGLYCVGDSCFPG 471
>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 = 96.3 bits (240), Expect = 5e-22
Identities = 49/213 (23%), Positives = 72/213 (33%), Gaps = 48/213 (22%)
Query: 1192 SFSSAIKLFDPVIRYK----------VLMLYAWCRYCDDVIDNQICGNRSKFLKKNVSMK 1241
S + L + V +L+A DD++D+ ++
Sbjct: 1 SRPLLVLLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDDS-------------DLR 47
Query: 1242 HKLK-ILRIKTKRACIGFKMKEPAFLALQKIISIHSFPVHLLF-----EHLDGFEMDVM- 1294
+ A A Q + + LF E L+G +D+
Sbjct: 48 RGKPTAHLRRFGNALAILAGDYLLARAFQLLARLGYPRALELFAEALRELLEGQALDLEF 107
Query: 1295 -ERTYITLDETLGYCYH-VAGTIGL---IIAHLIGVKEKDTLNC---ARNLGIAFQLTNI 1346
TY TLDE L YC + AG +GL + A L G ++ R LG+AFQLT+
Sbjct: 108 ERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAEALKDYGRALGLAFQLTDD 167
Query: 1347 SRDVIDDFYV----------GRCYLPLDWLRNE 1369
DV D GR LP+ R
Sbjct: 168 LLDVFGDAEELGKVGSDLREGRITLPVILARER 200
>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 = 86.8 bits (215), Expect = 1e-18
Identities = 54/230 (23%), Positives = 93/230 (40%), Gaps = 20/230 (8%)
Query: 1210 MLYAWCRYCDDVIDNQICGNRSKFLKKNVSMKHKLKILRIKTKRACIGFKMKEPAFLALQ 1269
L+A DD++D+ G R ++++ I G + AF L
Sbjct: 21 KLHAASLVHDDIVDDS--GTRRGLPTAHLAVAIDGLPEAIL-----AGDLLLADAFEELA 73
Query: 1270 KIISIHSFPV--HLLFEHLDGFEMDVM--ERTYITLDETLGYCYHV-AGTIGL---IIAH 1321
+ S + + L + L+G +D+ TL+E L YC + AG +G + A
Sbjct: 74 REGSPEALEILAEALLDLLEGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAG 133
Query: 1322 LIGVKEKDTLNC---ARNLGIAFQLTNISRDVIDDFYV--GRCYLPLDWLRNEGLNKSNF 1376
L G + + R LG+AFQLTN D D G+C LP+ + G+ +
Sbjct: 134 LSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERGEGKCTLPVLYALEYGVPAEDL 193
Query: 1377 VLAENRKKLFKVVTRILDVAEFYYSSSLVKLNTLPLRSTLAIVTSWSIYR 1426
+L E L + + + +AE + +LP + + ++YR
Sbjct: 194 LLVEKSGSLEEALEELAKLAEEALKELNELILSLPDVPRALLALALNLYR 243
>gnl|CDD|188327 TIGR03464, HpnC, squalene synthase HpnC. This family of genes are
members of a superfamily (pfam00494) of phytoene and
squalene synthases which catalyze the head-t0-head
condensation of polyisoprene pyrophosphates. The genes of
this family are often found in the same genetic locus
with squalene-hopene cyclase genes, and are never
associated with genes for the metabolism of phytoene. In
the organisms Zymomonas mobilis and Bradyrhizobium
japonicum these genes have been characterized as squalene
synthases (farnesyl-pyrophosphate ligases). Often, these
genes appear in tandem with the HpnD gene which appears
to have resulted from an ancient gene duplication event.
Presumably these proteins form a heteromeric complex, but
this has not yet been experimentally demonstrated.
Length = 266
Score = 86.2 bits (214), Expect = 2e-18
Identities = 52/188 (27%), Positives = 80/188 (42%), Gaps = 15/188 (7%)
Query: 1187 KAGSKSFSSAIKLFDPVIRYKVLMLYAWCRYCDDVIDNQICGNRSKFLKKNVSMKHKLKI 1246
A ++F A L +R + +YA+ R DD+ D S + +L +
Sbjct: 2 VAHYENFPVASLLLPARLRAPIHAVYAFARTADDIADEGD-----------ASAEERLAL 50
Query: 1247 L---RIKTKRACIGFKMKEPAFLALQKIISIHSFPVHLLFEHLDGFEMDVMERTYITLDE 1303
L R + G + P F+AL + + H P+ + LD F D + Y T E
Sbjct: 51 LDDLRAELDAIYSG-EPAAPVFVALARTVRRHGLPIEPFLDLLDAFRQDQVVTRYATWAE 109
Query: 1304 TLGYCYHVAGTIGLIIAHLIGVKEKDTLNCARNLGIAFQLTNISRDVIDDFYVGRCYLPL 1363
L YC + A +G ++ L G + + L + + A QL N +DV D GR YLP
Sbjct: 110 LLDYCRYSANPVGRLVLDLYGASDPERLALSDAICTALQLINFWQDVGVDLRKGRVYLPR 169
Query: 1364 DWLRNEGL 1371
D L G+
Sbjct: 170 DDLARFGV 177
>gnl|CDD|205628 pfam13450, NAD_binding_8, NAD(P)-binding Rossmann-like domain.
Length = 66
Score = 59.0 bits (144), Expect = 5e-11
Identities = 18/54 (33%), Positives = 27/54 (50%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYKQDGFIFDAGPTVITDPN 771
GAG+ G+ A L G ++LE+RD+ GG AY + G+ D G +
Sbjct: 3 GAGLSGLVAAYLLAKRGKDVLVLEKRDRIGGNAYSERDPGYRHDYGAHIFHTSY 56
Score = 34.4 bits (80), Expect = 0.029
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRDKL 346
GAG+ G+ A L G ++LE+RD++
Sbjct: 3 GAGLSGLVAAYLLAKRGKDVLVLEKRDRI 31
>gnl|CDD|237009 PRK11883, PRK11883, protoporphyrinogen oxidase; Reviewed.
Length = 451
Score = 49.5 bits (119), Expect = 1e-05
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 718 GAGIGGIALAIRLQTAG--ISTIILEQRDKPGGRAYVYKQDGFIFDAGP 764
G GI G++ A RL G +LE D+ GG+ ++DGF + GP
Sbjct: 7 GGGITGLSAAYRLHKKGPDADITLLEASDRLGGKIQTVRKDGFPIELGP 55
>gnl|CDD|216400 pfam01266, DAO, FAD dependent oxidoreductase. This family includes
various FAD dependent oxidoreductases:
Glycerol-3-phosphate dehydrogenase EC:1.1.99.5,
Sarcosine oxidase beta subunit EC:1.5.3.1, D-alanine
oxidase EC:1.4.99.1, D-aspartate oxidase EC:1.4.3.1.
Length = 234
Score = 47.7 bits (114), Expect = 1e-05
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 918 EYEWGIWFPKGGVG---ALIKALIKLFQNLGGNLILNSQVISIYVNNNKVNKVHLKNGQI 974
G+++P GG L++AL + + LG ++ ++V + V V ++G+I
Sbjct: 131 GIRGGLFYPDGGHVDPARLLRALARAAEALGVEILEGTEVTGLEREGGGV-TVETEDGEI 189
Query: 975 FDADIIVSNADI 986
AD +V NAD
Sbjct: 190 -RADKVV-NADS 199
Score = 36.5 bits (85), Expect = 0.061
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGG 748
G GI G++ A L G+S +LE+ D G
Sbjct: 6 GGGIVGLSTAYELARRGLSVTLLERGDLASG 36
Score = 36.1 bits (84), Expect = 0.088
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRD 344
G GI G++ A L G+S +LE+ D
Sbjct: 6 GGGIVGLSTAYELARRGLSVTLLERGD 32
>gnl|CDD|215375 PLN02697, PLN02697, lycopene epsilon cyclase.
Length = 529
Score = 47.9 bits (114), Expect = 3e-05
Identities = 41/192 (21%), Positives = 76/192 (39%), Gaps = 22/192 (11%)
Query: 138 FIYTLPLTPNSLMIEDTRYTKKPFLKIDMLKKSIKDYAIKNRWKLKNIEREEIGSIPI-- 195
F+Y +P++ + E+T K + D+LKK + ++ EE IP+
Sbjct: 306 FLYAMPMSSTRVFFEETCLASKDAMPFDLLKKRLMSRLETMGIRILKTYEEEWSYIPVGG 365
Query: 196 ALKNEKIIKFKKTICVGLRANLLHATTGYSLPIAIQLAENIAKYSITTNQINSTVLFKLV 255
+L N + +K + G A+++H TGYS+ ++ A A S+ + + +
Sbjct: 366 SLPNTE----QKNLAFGAAASMVHPATGYSVVRSLSEAPKYA--SVIARILKNVSSGGKL 419
Query: 256 KKFIIN-------------HQKKQR-FFCMLNRLFFLSNSRCHLDIMQYFYTLPDKIIRN 301
+ +K+QR FF L ++ F+ LP + +
Sbjct: 420 GTSNSSNISMQAWNTLWPQERKRQRAFFLFGLALILQLDTEGIRTFFVTFFRLPKWMWQG 479
Query: 302 FYANKLSFFDKI 313
F + LS D I
Sbjct: 480 FLGSTLSSVDLI 491
Score = 47.9 bits (114), Expect = 3e-05
Identities = 41/192 (21%), Positives = 76/192 (39%), Gaps = 22/192 (11%)
Query: 538 FIYTLPLTPNSLMIEDTRYTKKPFLKIDMLKKSIKDYAIKNRWKLKNIEREEIGSIPI-- 595
F+Y +P++ + E+T K + D+LKK + ++ EE IP+
Sbjct: 306 FLYAMPMSSTRVFFEETCLASKDAMPFDLLKKRLMSRLETMGIRILKTYEEEWSYIPVGG 365
Query: 596 ALKNEKIIKFKKTICVGLRANLLHATTGYSLPIAIQLAENIAKYSITTNQINSTVLFKLV 655
+L N + +K + G A+++H TGYS+ ++ A A S+ + + +
Sbjct: 366 SLPNTE----QKNLAFGAAASMVHPATGYSVVRSLSEAPKYA--SVIARILKNVSSGGKL 419
Query: 656 KKFIIN-------------HQKKQR-FFCMLNRLFFLSNSRCHLDIMQYFYTLPDKIIRN 701
+ +K+QR FF L ++ F+ LP + +
Sbjct: 420 GTSNSSNISMQAWNTLWPQERKRQRAFFLFGLALILQLDTEGIRTFFVTFFRLPKWMWQG 479
Query: 702 FYANKLSFFDKI 713
F + LS D I
Sbjct: 480 FLGSTLSSVDLI 491
>gnl|CDD|233987 TIGR02733, desat_CrtD, C-3',4' desaturase CrtD. Members of this
family are slr1293, a carotenoid biosynthesis protein
which was shown to be the C-3',4' desaturase (CrtD) of
myxoxanthophyll biosynthesis in Synechocystis sp. strain
PCC 6803, and close homologs (presumed to be
functionally equivalent) from other cyanobacteria, where
myxoxanthophyll biosynthesis is either known or
expected. This enzyme can act on neurosporene and so
presumably catalyzes the first step that is committed to
myxoxanthophyll [Biosynthesis of cofactors, prosthetic
groups, and carriers, Other].
Length = 492
Score = 47.4 bits (113), Expect = 4e-05
Identities = 21/48 (43%), Positives = 27/48 (56%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYKQDGFIFDAGPT 765
GAGI G+ A L G +LEQ +PGG A +++ GF FD G T
Sbjct: 8 GAGIAGLTAAALLAKRGYRVTLLEQHAQPGGCAGTFRRRGFTFDVGAT 55
>gnl|CDD|224983 COG2072, TrkA, Predicted flavoprotein involved in K+ transport
[Inorganic ion transport and metabolism].
Length = 443
Score = 46.7 bits (111), Expect = 7e-05
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 718 GAGIGGIALAIRLQTAGIS-TIILEQRDKPGG 748
GAG G+A A L+ AG+ +I E+RD GG
Sbjct: 15 GAGQSGLAAAYALKQAGVPDFVIFEKRDDVGG 46
Score = 40.5 bits (95), Expect = 0.005
Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 3/34 (8%)
Query: 318 GAGIGGIALAIRLQTAGIS-TIILEQRDKL--SW 348
GAG G+A A L+ AG+ +I E+RD + +W
Sbjct: 15 GAGQSGLAAAYALKQAGVPDFVIFEKRDDVGGTW 48
>gnl|CDD|177909 PLN02268, PLN02268, probable polyamine oxidase.
Length = 435
Score = 46.6 bits (111), Expect = 7e-05
Identities = 21/49 (42%), Positives = 24/49 (48%)
Query: 715 IFSGAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYKQDGFIFDAG 763
I G GI GIA A L A +LE RD+ GGR + GF D G
Sbjct: 4 IVIGGGIAGIAAARALHDASFKVTLLESRDRIGGRVHTDYSFGFPVDMG 52
Score = 37.0 bits (86), Expect = 0.065
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 315 IFSGAGIGGIALAIRLQTAGISTIILEQRDKLSW-INLKFQFGV 357
I G GI GIA A L A +LE RD++ ++ + FG
Sbjct: 4 IVIGGGIAGIAAARALHDASFKVTLLESRDRIGGRVHTDYSFGF 47
>gnl|CDD|213540 TIGR00562, proto_IX_ox, protoporphyrinogen oxidase. This enzyme
oxidizes protoporphyrinogen IX to protoporphyrin IX, a
precursor of heme and chlorophyll. Bacillus subtilis
HemY also has coproporphyrinogen III to coproporphyrin
III oxidase activity in a heterologous expression
system, although the role for this activity in vivo is
unclear. This protein is a flavoprotein and has a
beta-alpha-beta dinucleotide binding motif near the
amino end [Biosynthesis of cofactors, prosthetic groups,
and carriers, Heme, porphyrin, and cobalamin].
Length = 462
Score = 46.8 bits (111), Expect = 7e-05
Identities = 25/119 (21%), Positives = 45/119 (37%), Gaps = 14/119 (11%)
Query: 718 GAGIGGIALAIRLQT----AGISTIILEQRDKPGGRAYVYKQDGFIFDAGPTVI--TDPN 771
G GI G+ A L+ + ++E D+ GG+ K+DG++ + GP +
Sbjct: 9 GGGISGLCAAYYLEKEIPELPVELTLVEASDRVGGKIQTVKEDGYLIERGPDSFLERKKS 68
Query: 772 SIKLLFDLSKNRMENYVNLLPIKPFYRLYWGKEKFLNYEDNIKDLEKQIAKFNLNDIKG 830
+ L+ DL E+ + Y + + K + I K L + G
Sbjct: 69 APDLVKDLGL---EHVLVSDATGQRY-VLVNRGKLMPVPTKIAPF----VKTGLFSLGG 119
>gnl|CDD|224153 COG1232, HemY, Protoporphyrinogen oxidase [Coenzyme metabolism].
Length = 444
Score = 45.0 bits (107), Expect = 2e-04
Identities = 23/66 (34%), Positives = 34/66 (51%), Gaps = 4/66 (6%)
Query: 718 GAGIGGIALAIRLQTAG--ISTIILEQRDKPGGRAYVYKQDGFIFDAGPT--VITDPNSI 773
G GI G++ A RLQ AG + + E D+ GG K DGF+F+ GP + +
Sbjct: 7 GGGIAGLSAAYRLQKAGPDVEVTLFEADDRVGGLLRTVKIDGFLFERGPHHFLARKEEIL 66
Query: 774 KLLFDL 779
L+ +L
Sbjct: 67 DLIKEL 72
>gnl|CDD|178144 PLN02529, PLN02529, lysine-specific histone demethylase 1.
Length = 738
Score = 44.9 bits (106), Expect = 3e-04
Identities = 24/58 (41%), Positives = 34/58 (58%), Gaps = 4/58 (6%)
Query: 715 IFSGAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYK---QDGF-IFDAGPTVIT 768
I GAG+ G+A A +L + G ++LE R++PGGR Y K + F D G +VIT
Sbjct: 164 IIVGAGLAGLAAARQLLSFGFKVVVLEGRNRPGGRVYTQKMGRKGQFAAVDLGGSVIT 221
>gnl|CDD|215314 PLN02576, PLN02576, protoporphyrinogen oxidase.
Length = 496
Score = 44.2 bits (105), Expect = 4e-04
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 718 GAGIGGIALAIRLQTA-GISTIILEQRDKPGGRAYVYKQDGFIFDAGP-TVITDPNSIKL 775
GAG+ G+A A L + G++ ++ E RD+ GG +DGFI++ GP + +
Sbjct: 19 GAGVSGLAAAYALASKHGVNVLVTEARDRVGGNITSVSEDGFIWEEGPNSFQPSDPELTS 78
Query: 776 LFDL 779
D
Sbjct: 79 AVDS 82
>gnl|CDD|223727 COG0654, UbiH, 2-polyprenyl-6-methoxyphenol hydroxylase and related
FAD-dependent oxidoreductases [Coenzyme metabolism /
Energy production and conversion].
Length = 387
Score = 43.5 bits (103), Expect = 6e-04
Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 18/65 (27%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRD---KPGGRAYVYKQDGFIFDAGPTVITDPNSIK 774
GAG G+ALA+ L AG+ +LE+ GR ++ PN+++
Sbjct: 9 GAGPAGLALALALARAGLDVTLLERAPRELLERGRGI--------------ALS-PNALR 53
Query: 775 LLFDL 779
L L
Sbjct: 54 ALERL 58
Score = 38.9 bits (91), Expect = 0.018
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQR 343
GAG G+ALA+ L AG+ +LE+
Sbjct: 9 GAGPAGLALALALARAGLDVTLLERA 34
>gnl|CDD|178082 PLN02463, PLN02463, lycopene beta cyclase.
Length = 447
Score = 43.9 bits (104), Expect = 6e-04
Identities = 36/144 (25%), Positives = 71/144 (49%), Gaps = 16/144 (11%)
Query: 138 FIYTLPLTPNSLMIEDTRYTKKPFLKIDMLKKSIKDYAIKNRW---KLKNIEREEIGSIP 194
F+Y +P + N + +E+T +P L +D +++ + + R K+K++E +E IP
Sbjct: 228 FLYAMPFSSNRIFLEETSLVARPGLPMDDIQERMV---ARLRHLGIKVKSVEEDEKCVIP 284
Query: 195 IALKNEKIIKFKKTICVGLRANLLHATTGY----SLPIAIQLAENIAKY--SITTNQINS 248
+ I ++ + +G A ++H +TGY +L A +A+ I +Y S +N
Sbjct: 285 MGGPLPVIP--QRVLGIGGTAGMVHPSTGYMVARTLAAAPIVADAIVEYLGSSRSNSFRG 342
Query: 249 TVLFKLVKKFI--INHQKKQRFFC 270
L V + I ++++ FFC
Sbjct: 343 DELSAEVWNDLWPIERRRQREFFC 366
Score = 43.9 bits (104), Expect = 6e-04
Identities = 36/144 (25%), Positives = 71/144 (49%), Gaps = 16/144 (11%)
Query: 538 FIYTLPLTPNSLMIEDTRYTKKPFLKIDMLKKSIKDYAIKNRW---KLKNIEREEIGSIP 594
F+Y +P + N + +E+T +P L +D +++ + + R K+K++E +E IP
Sbjct: 228 FLYAMPFSSNRIFLEETSLVARPGLPMDDIQERMV---ARLRHLGIKVKSVEEDEKCVIP 284
Query: 595 IALKNEKIIKFKKTICVGLRANLLHATTGY----SLPIAIQLAENIAKY--SITTNQINS 648
+ I ++ + +G A ++H +TGY +L A +A+ I +Y S +N
Sbjct: 285 MGGPLPVIP--QRVLGIGGTAGMVHPSTGYMVARTLAAAPIVADAIVEYLGSSRSNSFRG 342
Query: 649 TVLFKLVKKFI--INHQKKQRFFC 670
L V + I ++++ FFC
Sbjct: 343 DELSAEVWNDLWPIERRRQREFFC 366
>gnl|CDD|223652 COG0579, COG0579, Predicted dehydrogenase [General function
prediction only].
Length = 429
Score = 43.0 bits (102), Expect = 0.001
Identities = 19/67 (28%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 922 GIWFPKGGV---GALIKALIKLFQNLGGNLILNSQVISIYVNNNKVNKVHLKNGQI-FDA 977
+ P GG+ G L +AL + Q G L LN++V I ++ V ++ NG+ +A
Sbjct: 141 ALLVPSGGIVDPGELTRALAEEAQANGVELRLNTEVTGIEKQSDGVFVLNTSNGEETLEA 200
Query: 978 DIIVSNA 984
+++ A
Sbjct: 201 KFVINAA 207
Score = 40.3 bits (95), Expect = 0.007
Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 10 DFILIGAGLWNSIIAWYLKQYNPKLNVLLLELSSSVKNHIWSFHQT 55
D ++IG G+ + A+ L +Y P L+V LLE K + +
Sbjct: 5 DVVIIGGGIMGAATAYELSEYEPDLSVALLE-----KEDGVAQESS 45
Score = 30.3 bits (69), Expect = 9.1
Identities = 23/103 (22%), Positives = 35/103 (33%), Gaps = 16/103 (15%)
Query: 371 IAWYLKQYNPKLNVLLLELSSSVKNHIWSFHQNDISSSQYMLIKPLITYSWPSYQVKFPK 430
A+ L +Y P L+V LLE K + SS+ +I + Y +K K
Sbjct: 18 TAYELSEYEPDLSVALLE-----KEDGVAQES---SSNNSGVIHAGLYY--TPGSLKA-K 66
Query: 431 FNRKIFSGYYSICSKHLNSY-----LIRALGINNFLFNNKTVE 468
++IC + + L A G K E
Sbjct: 67 LCVAGNINEFAICKQLGIPFINCGKLSVATGEEEVERLEKLYE 109
>gnl|CDD|188157 TIGR01559, squal_synth, farnesyl-diphosphate farnesyltransferase.
This model describes farnesyl-diphosphate
farnesyltransferase, also known as squalene synthase, as
found in eukaryotes. This family is related to phytoene
synthases. Tentatively identified archaeal homologs
(excluded from this model) lack the C-terminal predicted
transmembrane region universally conserved among members
of this family.
Length = 337
Score = 42.4 bits (100), Expect = 0.001
Identities = 47/201 (23%), Positives = 83/201 (41%), Gaps = 43/201 (21%)
Query: 1190 SKSFSSAIKLFDPVIRYKVLMLYAWCRYCDDVIDNQICGNRSKFLKKNVSMKHKLKILRI 1249
S+SF++ I+ P +R V + Y R D V D+ +S+ K+ +LR
Sbjct: 14 SRSFAAVIQELPPELRNAVCIFYLVLRALDTVEDDM-----------TISVDKKIPLLRD 62
Query: 1250 KTKRACI---GFKMKEPAFLALQKIISIHSFPVHLL-FEHLDGFEMDVMERT-------- 1297
+ I ++ E + + FPV L F L +V+
Sbjct: 63 FHE--KIYDPDWRFTESD--NEKDRQVLDDFPVVSLEFLKLKPKYQEVIADITRRMGNGM 118
Query: 1298 --YI----TLDETLG----YCYHVAGTIGLIIAHLIGVKEKDTLNCARN------LGIAF 1341
+I T ++T+G YC++VAG +G+ ++ L + + + +G+
Sbjct: 119 ADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVASGFEDPSLGESEALSNSMGLFL 178
Query: 1342 QLTNISRDVIDDFYVGRCYLP 1362
Q TNI RD ++D GR + P
Sbjct: 179 QKTNIIRDYLEDINEGRMFWP 199
>gnl|CDD|178578 PLN03000, PLN03000, amine oxidase.
Length = 881
Score = 40.8 bits (95), Expect = 0.006
Identities = 22/58 (37%), Positives = 31/58 (53%), Gaps = 4/58 (6%)
Query: 715 IFSGAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYKQD----GFIFDAGPTVIT 768
+ GAG+ G+A A +L G +LE R +PGGR Y K + G D G +V+T
Sbjct: 188 VIVGAGLSGLAAARQLMRFGFKVTVLEGRKRPGGRVYTKKMEANRVGAAADLGGSVLT 245
>gnl|CDD|222355 pfam13738, Pyr_redox_3, Pyridine nucleotide-disulphide
oxidoreductase.
Length = 202
Score = 38.8 bits (91), Expect = 0.009
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 718 GAGIGGIALAIRLQTAGIST-IILEQRDKPGG 748
GAG G+A A L G + II+++ +PGG
Sbjct: 4 GAGAAGMAFADHLLDLGDAPVIIVDRGAQPGG 35
Score = 31.9 bits (73), Expect = 1.6
Identities = 10/29 (34%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 318 GAGIGGIALAIRLQTAGIST-IILEQRDK 345
GAG G+A A L G + II+++ +
Sbjct: 4 GAGAAGMAFADHLLDLGDAPVIIVDRGAQ 32
>gnl|CDD|215187 PLN02328, PLN02328, lysine-specific histone demethylase 1 homolog.
Length = 808
Score = 40.4 bits (94), Expect = 0.009
Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 8/74 (10%)
Query: 706 KLSFFDKIR----IFSGAGIGGIALAIRLQTAGISTIILEQRDKPGGR--AYVYKQDGFI 759
+L F+ + + GAG+ G+ A +L + G ++LE R +PGGR K DG +
Sbjct: 229 QLRSFEGVEPANVVVVGAGLAGLVAARQLLSMGFKVVVLEGRARPGGRVKTMKMKGDGVV 288
Query: 760 --FDAGPTVITDPN 771
D G +V+T N
Sbjct: 289 AAADLGGSVLTGIN 302
>gnl|CDD|181262 PRK08163, PRK08163, salicylate hydroxylase; Provisional.
Length = 396
Score = 39.6 bits (93), Expect = 0.009
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 315 IFSGAGIGGIALAIRLQTAGISTIILEQRDKLSWINLKFQFGVGYPN 361
+ G GIGG+A A+ L GI +LEQ ++ I Q G PN
Sbjct: 8 LIVGGGIGGLAAALALARQGIKVKLLEQAAEIGEIGAGIQLG---PN 51
Score = 35.4 bits (82), Expect = 0.22
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 715 IFSGAGIGGIALAIRLQTAGISTIILEQRDKPG 747
+ G GIGG+A A+ L GI +LEQ + G
Sbjct: 8 LIVGGGIGGLAAALALARQGIKVKLLEQAAEIG 40
>gnl|CDD|223717 COG0644, FixC, Dehydrogenases (flavoproteins) [Energy production
and conversion].
Length = 396
Score = 39.4 bits (92), Expect = 0.011
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 6/58 (10%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPG------GRAYVYKQDGFIFDAGPTVITD 769
GAG G + A RL AG+ ++LE+ +PG G + I D +
Sbjct: 10 GAGPAGSSAARRLAKAGLDVLVLEKGSEPGAKPCCGGGLSPRALEELIPDFDEEIERK 67
Score = 34.0 bits (78), Expect = 0.59
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRD 344
GAG G + A RL AG+ ++LE+
Sbjct: 10 GAGPAGSSAARRLAKAGLDVLVLEKGS 36
Score = 31.3 bits (71), Expect = 4.1
Identities = 12/101 (11%), Positives = 28/101 (27%), Gaps = 7/101 (6%)
Query: 931 GALIKALIKLFQNLGGNLILNSQVISIYVNNNKVNKVHLKNGQIFDADIIV-------SN 983
K L + + G L ++V + ++ V A +++ +
Sbjct: 95 AKFDKWLAERAEEAGAELYPGTRVTGVIREDDGVVVGVRAGDDEVRAKVVIDADGVNSAL 154
Query: 984 ADIINTYRNLLGQYAFGKKKYMNLIKKKMSNSLFVIYFGLS 1024
A + YA G K+ + + +
Sbjct: 155 ARKLGLKDRKPEDYAIGVKEVIEVPDDGDVEEFLYGPLDVG 195
>gnl|CDD|224152 COG1231, COG1231, Monoamine oxidase [Amino acid transport and
metabolism].
Length = 450
Score = 39.3 bits (92), Expect = 0.013
Identities = 50/281 (17%), Positives = 89/281 (31%), Gaps = 56/281 (19%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRAY-VYKQDGFIFDAGPTVITDPNSIKLL 776
GAG+ G++ A L+ AG ILE RD+ GGR+ + G + ++ L
Sbjct: 14 GAGLAGLSAAYELKKAGYQVQILEARDRVGGRSLTARAGGEYTDLGGQYINPTHDA---L 70
Query: 777 FDLSKNRMENYVNLLPIKPFYRLYWGKEKFLNYEDNIKDLEKQIAKFNLNDIKGYRLFLN 836
+K +P++PF R ++ + + D++G
Sbjct: 71 LAYAKEFG------VPLEPFIRDGDNVIGYVGSS----KSTPKRSLTAAADVRGLVA-EL 119
Query: 837 YSKKVFKEGYLSFASKSFLTINDMLFILPKLIKIKAWKSVYSIVSQFIKNDYLKQAFSFN 896
+K + ++ AWK+ L +
Sbjct: 120 EAKARSAGELDPGLTPEDRELDLESL--------AAWKTS--------SLRGLSRDPG-- 161
Query: 897 SLFIGGNPFSTSSI-YTLIHALEYEW-------GIWF--------PKGGVGALIKALIKL 940
+P +L+H GI GG+ L +A K
Sbjct: 162 ---ARVSPGPIEPGDVSLLHDALPLRSASVVDRGIGGEIRTQMLQRLGGMDQLAEAFAK- 217
Query: 941 FQNLGGNLILNSQVISIYVNNNKVNKVHLKNGQIFDADIIV 981
LG ++LN V I + + V V + + AD ++
Sbjct: 218 --QLGTRILLNEPVRRIDQDGDGV-TVTADDVGQYVADYVL 255
>gnl|CDD|215527 PLN02976, PLN02976, amine oxidase.
Length = 1713
Score = 39.5 bits (92), Expect = 0.019
Identities = 19/40 (47%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 712 KIRIFSGAGIGGIALAIRLQTAGISTIILEQRDKPGGRAY 751
KI I GAG G+ A LQ G S +LE R + GGR Y
Sbjct: 695 KI-IVVGAGPAGLTAARHLQRQGFSVTVLEARSRIGGRVY 733
>gnl|CDD|225915 COG3380, COG3380, Predicted NAD/FAD-dependent oxidoreductase
[General function prediction only].
Length = 331
Score = 38.2 bits (89), Expect = 0.024
Identities = 19/46 (41%), Positives = 24/46 (52%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYKQDGFIFDAG 763
GAGI G+A A L+ AG + E+ GGR + DG FD G
Sbjct: 8 GAGIAGLAAAYALREAGREVTVFEKGRGVGGRLATRRLDGGRFDHG 53
>gnl|CDD|236046 PRK07538, PRK07538, hypothetical protein; Provisional.
Length = 413
Score = 38.3 bits (90), Expect = 0.029
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQ 342
G GIGG+ LA+ L GI ++ E
Sbjct: 7 GGGIGGLTLALTLHQRGIEVVVFEA 31
Score = 38.3 bits (90), Expect = 0.029
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQ 742
G GIGG+ LA+ L GI ++ E
Sbjct: 7 GGGIGGLTLALTLHQRGIEVVVFEA 31
>gnl|CDD|215362 PLN02676, PLN02676, polyamine oxidase.
Length = 487
Score = 38.2 bits (89), Expect = 0.035
Identities = 20/43 (46%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 715 IFSGAGIGGIALAIRLQTAGISTI-ILEQRDKPGGRAYVYKQD 756
I GAG+ GI+ A L AGI I ILE D+ GGR + K +
Sbjct: 30 IIVGAGMSGISAAKTLSEAGIEDILILEATDRIGGR--MRKAN 70
Score = 31.2 bits (71), Expect = 5.0
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 315 IFSGAGIGGIALAIRLQTAGISTI-ILEQRDKLSWINLKFQFG 356
I GAG+ GI+ A L AGI I ILE D++ K F
Sbjct: 30 IIVGAGMSGISAAKTLSEAGIEDILILEATDRIGGRMRKANFA 72
>gnl|CDD|225885 COG3349, COG3349, Uncharacterized conserved protein [Function
unknown].
Length = 485
Score = 38.2 bits (89), Expect = 0.036
Identities = 21/62 (33%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYK-QDGFIFDAGPTVITD--PNSIK 774
GAG+ G+A A L AG + E RD+ GG+ ++ DG + G V N +
Sbjct: 7 GAGLAGLAAAYELADAGYDVTLYEARDRLGGKVASWRDSDGNHVEHGLHVFFGCYYNLLT 66
Query: 775 LL 776
LL
Sbjct: 67 LL 68
Score = 31.2 bits (71), Expect = 4.7
Identities = 15/38 (39%), Positives = 20/38 (52%), Gaps = 5/38 (13%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRDKL-----SWIN 350
GAG+ G+A A L AG + E RD+L SW +
Sbjct: 7 GAGLAGLAAAYELADAGYDVTLYEARDRLGGKVASWRD 44
>gnl|CDD|225307 COG2509, COG2509, Uncharacterized FAD-dependent dehydrogenases
[General function prediction only].
Length = 486
Score = 37.7 bits (88), Expect = 0.048
Identities = 15/48 (31%), Positives = 29/48 (60%)
Query: 934 IKALIKLFQNLGGNLILNSQVISIYVNNNKVNKVHLKNGQIFDADIIV 981
+K + + ++LGG + N++V I + +N+V V L G+ +AD +V
Sbjct: 176 VKNIREYLESLGGEIRFNTEVEDIEIEDNEVLGVKLTKGEEIEADYVV 223
>gnl|CDD|235977 PRK07233, PRK07233, hypothetical protein; Provisional.
Length = 434
Score = 36.8 bits (86), Expect = 0.078
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYKQDGFIFD 761
G GI G+A A RL G + E D+ GG A ++ G +
Sbjct: 6 GGGIAGLAAAYRLAKRGHEVTVFEADDQLGGLAASFEFGGLPIE 49
Score = 34.1 bits (79), Expect = 0.61
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 925 FPKGGVGALIKALIKLFQNLGGNLILNSQVISIYVNNNKVNKVHLKNGQI-FDADII 980
+ +GG LI AL + + GG + L + V S+ ++ V V + + FDA I
Sbjct: 192 YLEGGFATLIDALAEAIEARGGEIRLGTPVTSVVIDGGGVTGVEVDGEEEDFDAVIS 248
Score = 30.2 bits (69), Expect = 8.6
Identities = 12/29 (41%), Positives = 15/29 (51%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRDKL 346
G GI G+A A RL G + E D+L
Sbjct: 6 GGGIAGLAAAYRLAKRGHEVTVFEADDQL 34
>gnl|CDD|235660 PRK05976, PRK05976, dihydrolipoamide dehydrogenase; Validated.
Length = 472
Score = 36.0 bits (84), Expect = 0.14
Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGG 748
G G GG AIR G+ T ++E + K GG
Sbjct: 11 GGGPGGYVAAIRAGQLGLKTALVE-KGKLGG 40
Score = 31.8 bits (73), Expect = 3.4
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRDKL 346
G G GG AIR G+ T ++E + KL
Sbjct: 11 GGGPGGYVAAIRAGQLGLKTALVE-KGKL 38
>gnl|CDD|236198 PRK08243, PRK08243, 4-hydroxybenzoate 3-monooxygenase; Validated.
Length = 392
Score = 35.5 bits (83), Expect = 0.20
Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 4/35 (11%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYV 752
GAG G+ L L AGI +++LE+R R YV
Sbjct: 9 GAGPAGLLLGQLLHLAGIDSVVLERRS----REYV 39
Score = 32.8 bits (76), Expect = 1.4
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRDK 345
GAG G+ L L AGI +++LE+R +
Sbjct: 9 GAGPAGLLLGQLLHLAGIDSVVLERRSR 36
>gnl|CDD|235412 PRK05329, PRK05329, anaerobic glycerol-3-phosphate dehydrogenase
subunit B; Validated.
Length = 422
Score = 35.2 bits (82), Expect = 0.23
Identities = 10/39 (25%), Positives = 18/39 (46%)
Query: 935 KALIKLFQNLGGNLILNSQVISIYVNNNKVNKVHLKNGQ 973
AL + F+ LGG ++ +V+ +V V +N
Sbjct: 263 NALRRAFERLGGRIMPGDEVLGAEFEGGRVTAVWTRNHG 301
>gnl|CDD|216176 pfam00890, FAD_binding_2, FAD binding domain. This family includes
members that bind FAD. This family includes the
flavoprotein subunits from succinate and fumarate
dehydrogenase, aspartate oxidase and the alpha subunit
of adenylylsulphate reductase.
Length = 401
Score = 35.4 bits (82), Expect = 0.23
Identities = 8/25 (32%), Positives = 16/25 (64%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQ 342
G+G+ G+A A+ AG+ ++E+
Sbjct: 6 GSGLAGLAAALEAAEAGLKVAVVEK 30
Score = 35.4 bits (82), Expect = 0.23
Identities = 8/25 (32%), Positives = 16/25 (64%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQ 742
G+G+ G+A A+ AG+ ++E+
Sbjct: 6 GSGLAGLAAALEAAEAGLKVAVVEK 30
>gnl|CDD|131778 TIGR02731, phytoene_desat, phytoene desaturase. Plants and
cyanobacteria (and, supposedly, Chlorobium tepidum) have
a conserved pathway from two molecules geranylgeranyl-PP
to one of all-trans-lycopene. Members of this family are
the enzyme pytoene desaturase (also called phytoene
dehydrogenase). This model does not include the region
of the chloroplast transit peptide in plants. A closely
related family, excluded by this model, is zeta-carotene
desaturase, another enzyme in the same pathway
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 453
Score = 35.2 bits (81), Expect = 0.28
Identities = 34/115 (29%), Positives = 56/115 (48%), Gaps = 20/115 (17%)
Query: 717 SGAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYK-QDGFIFDAGPTVI--TDPNSI 773
+GAG+ G++ A L AG + I+LE RD GG+ +K +DG ++ G + PN +
Sbjct: 5 AGAGLAGLSCAKYLADAGHTPIVLEARDVLGGKVAAWKDEDGDWYETGLHIFFGAYPNML 64
Query: 774 KLLFDLSKNRMENYVNLLPIKPFYRLYWGKEKFLNYEDNIKDLEKQIAKFNLNDI 828
+LL +L +E+ RL W K + + N D ++F+ DI
Sbjct: 65 QLLKEL---NIED-----------RLQW-KSHSMIF--NQPDKPGTFSRFDFPDI 102
>gnl|CDD|235874 PRK06847, PRK06847, hypothetical protein; Provisional.
Length = 375
Score = 34.8 bits (81), Expect = 0.28
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRAY 751
G GIGG++ AI L+ AGI+ ++E P R Y
Sbjct: 11 GGGIGGLSAAIALRRAGIAVDLVEI--DPEWRVY 42
Score = 33.7 bits (78), Expect = 0.62
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 318 GAGIGGIALAIRLQTAGISTIILE 341
G GIGG++ AI L+ AGI+ ++E
Sbjct: 11 GGGIGGLSAAIALRRAGIAVDLVE 34
>gnl|CDD|216530 pfam01494, FAD_binding_3, FAD binding domain. This domain is
involved in FAD binding in a number of enzymes.
Length = 349
Score = 34.6 bits (80), Expect = 0.38
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDK--PGGRA 750
G G G+ LA+ L AG+ +++E+ RA
Sbjct: 8 GGGPAGLMLALLLARAGVRVVLVERHATTSVLPRA 42
Score = 33.4 bits (77), Expect = 0.90
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRDKLS 347
G G G+ LA+ L AG+ +++E+ S
Sbjct: 8 GGGPAGLMLALLLARAGVRVVLVERHATTS 37
>gnl|CDD|203377 pfam06018, CodY, CodY GAF-like domain. This domain is a GAF-like
domain found at the N-terminus of several bacterial
GTP-sensing transcriptional pleiotropic repressor CodY
proteins. Presumably this domain is involved in GTP
binding. CodY has been found to repress the dipeptide
transport operon (dpp) of Bacillus subtilis in
nutrient-rich conditions. The CodY protein also has a
repressor effect on many genes in Lactococcus lactis
during growth in milk.
Length = 177
Score = 33.4 bits (77), Expect = 0.41
Identities = 15/52 (28%), Positives = 21/52 (40%), Gaps = 7/52 (13%)
Query: 977 ADIIVSNADIINTYRNLLGQYAFGKKKYMNLIKKKMSNSLFVIYFGLSEQYT 1028
AD+I N I++ LLG Y+ K N K+ E+YT
Sbjct: 31 ADVIECNVYIVSRKGKLLG-YSL-TYKTENDRVKQF-----FEDKKFPEEYT 75
>gnl|CDD|233693 TIGR02032, GG-red-SF, geranylgeranyl reductase family. This model
represents a subfamily which includes geranylgeranyl
reductases involved in chlorophyll and
bacteriochlorophyll biosynthesis as well as other
related enzymes which may also act on geranylgeranyl
groups or related substrates [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 295
Score = 34.2 bits (79), Expect = 0.44
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 715 IFSGAGIGGIALAIRLQTAGISTIILEQRDKPG 747
+ GAG G + A RL G+ ++LE++ P
Sbjct: 4 VVVGAGPAGASAAYRLADKGLRVLLLEKKSFPR 36
>gnl|CDD|223737 COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino
acid transport and metabolism].
Length = 387
Score = 34.5 bits (79), Expect = 0.44
Identities = 17/75 (22%), Positives = 24/75 (32%), Gaps = 17/75 (22%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRDKLSWINLKFQFGVGYPNT--NQGLWNSIIAWYL 375
G GI G++ A L G +LE + G N G I+A +
Sbjct: 11 GGGIVGLSAAYYLAERGADVTVLEAGE------------AGGGAAGRNAGG---ILAPWA 55
Query: 376 KQYNPKLNVLLLELS 390
L +LS
Sbjct: 56 SPGGELEVRPLADLS 70
Score = 33.3 bits (76), Expect = 0.93
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGG 748
G GI G++ A L G +LE + GG
Sbjct: 11 GGGIVGLSAAYYLAERGADVTVLEAGEAGGG 41
>gnl|CDD|236967 PRK11749, PRK11749, dihydropyrimidine dehydrogenase subunit A;
Provisional.
Length = 457
Score = 34.4 bits (80), Expect = 0.48
Identities = 15/31 (48%), Positives = 16/31 (51%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGG 748
GAG G+ A RL G I E RDK GG
Sbjct: 147 GAGPAGLTAAHRLARKGYDVTIFEARDKAGG 177
>gnl|CDD|183787 PRK12844, PRK12844, 3-ketosteroid-delta-1-dehydrogenase; Reviewed.
Length = 557
Score = 34.3 bits (79), Expect = 0.51
Identities = 12/31 (38%), Positives = 21/31 (67%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGG 748
G+G GG+ A+ +G+ +I+E++DK GG
Sbjct: 13 GSGGGGMCAALAAADSGLEPLIVEKQDKVGG 43
>gnl|CDD|224070 COG1148, HdrA, Heterodisulfide reductase, subunit A and related
polyferredoxins [Energy production and conversion].
Length = 622
Score = 34.4 bits (79), Expect = 0.53
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGR 749
G G+ GI A+ L G ++E+ GGR
Sbjct: 131 GGGVAGITAALELADMGFKVYLVEKEPSIGGR 162
Score = 30.1 bits (68), Expect = 9.5
Identities = 8/30 (26%), Positives = 14/30 (46%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRDKLS 347
G G+ GI A+ L G ++E+ +
Sbjct: 131 GGGVAGITAALELADMGFKVYLVEKEPSIG 160
>gnl|CDD|183292 PRK11728, PRK11728, hydroxyglutarate oxidase; Provisional.
Length = 393
Score = 34.0 bits (79), Expect = 0.59
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 13/50 (26%)
Query: 10 DFILIGAGLWNSII----AWYLKQYNPKLNVLLLELSSSVKNHIWSFHQT 55
DF++IG G I+ A L++ P + +LE K + HQT
Sbjct: 4 DFVIIGGG----IVGLSTAMQLQERYPGARIAVLE-----KESGPARHQT 44
>gnl|CDD|224169 COG1249, Lpd, Pyruvate/2-oxoglutarate dehydrogenase complex,
dihydrolipoamide dehydrogenase (E3) component, and
related enzymes [Energy production and conversion].
Length = 454
Score = 34.1 bits (79), Expect = 0.62
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGG 748
GAG G AIR G+ ++E+ ++ GG
Sbjct: 11 GAGPAGYVAAIRAAQLGLKVALVEKGERLGG 41
Score = 30.6 bits (70), Expect = 7.3
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRDKL 346
GAG G AIR G+ ++E+ ++L
Sbjct: 11 GAGPAGYVAAIRAAQLGLKVALVEKGERL 39
>gnl|CDD|221798 pfam12831, FAD_oxidored, FAD dependent oxidoreductase. This family
of proteins contains FAD dependent oxidoreductases and
related proteins.
Length = 415
Score = 33.7 bits (78), Expect = 0.65
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 6/34 (17%)
Query: 718 GAGIGGIALAI---RLQTAGISTIILEQRDKPGG 748
G G G+A AI RL G +++E+R GG
Sbjct: 6 GGGPAGVAAAIAAARL---GAKVLLVERRGWLGG 36
>gnl|CDD|215330 PLN02612, PLN02612, phytoene desaturase.
Length = 567
Score = 34.0 bits (78), Expect = 0.68
Identities = 19/50 (38%), Positives = 30/50 (60%), Gaps = 1/50 (2%)
Query: 715 IFSGAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYK-QDGFIFDAG 763
+ +GAG+ G++ A L AG I+LE RD GG+ +K +DG ++ G
Sbjct: 97 VIAGAGLAGLSTAKYLADAGHKPILLEARDVLGGKVAAWKDEDGDWYETG 146
Score = 32.9 bits (75), Expect = 1.6
Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 933 LIKALIKLFQNLGGNLILNSQVISIYVNN-NKVNKVHLKNGQIFDADIIVS 982
L ++ FQ+LGG + LNS++ I +N+ V L NG + + D+ VS
Sbjct: 310 LCMPIVDHFQSLGGEVRLNSRIKKIELNDDGTVKHFLLTNGSVVEGDVYVS 360
>gnl|CDD|233689 TIGR02023, BchP-ChlP, geranylgeranyl reductase. This model
represents a group of geranylgeranyl reductases specific
for the biosyntheses of bacteriochlorophyll and
chlorophyll. It is unclear whether the processes of
isoprenoid ligation to the chlorin ring and reduction of
the geranylgeranyl chain to a phytyl chain are
necessarily ordered the same way in all species (see
introduction to ) [Biosynthesis of cofactors, prosthetic
groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 388
Score = 33.6 bits (77), Expect = 0.68
Identities = 16/36 (44%), Positives = 18/36 (50%), Gaps = 3/36 (8%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQ---RDKPGGRA 750
G G G A L AGI TI+LE+ KP G A
Sbjct: 7 GGGPSGATAAETLARAGIETILLERALSNIKPCGGA 42
Score = 30.9 bits (70), Expect = 5.7
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQ 342
G G G A L AGI TI+LE+
Sbjct: 7 GGGPSGATAAETLARAGIETILLER 31
>gnl|CDD|153176 cd04904, ACT_AAAH, ACT domain of the nonheme iron-dependent,
aromatic amino acid hydroxylases (AAAH). ACT domain of
the nonheme iron-dependent, aromatic amino acid
hydroxylases (AAAH): Phenylalanine hydroxylases (PAH),
tyrosine hydroxylases (TH) and tryptophan hydroxylases
(TPH), both peripheral (TPH1) and neuronal (TPH2)
enzymes. This family of enzymes shares a common
catalytic mechanism, in which dioxygen is used by an
active site containing a single, reduced iron atom to
hydroxylate an unactivated aromatic substrate,
concomitant with a two-electron oxidation of
tetrahydropterin (BH4) cofactor to its quinonoid
dihydropterin form. PAH catalyzes the hydroxylation of
L-Phe to L-Tyr, the first step in the catabolic
degradation of L-Phe; TH catalyses the hydroxylation of
L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting
step in the biosynthesis of catecholamines; and TPH
catalyses the hydroxylation of L-Trp to
5-hydroxytryptophan, the rate limiting step in the
biosynthesis of 5-hydroxytryptamine (serotonin) and the
first reaction in the synthesis of melatonin. Eukaryotic
AAAHs have an N-terminal ACT (regulatory) domain, a
middle catalytic domain and a C-terminal domain which is
responsible for the oligomeric state of the enzyme
forming a domain-swapped tetrameric coiled-coil. The
PAH, TH, and TPH enzymes contain highly conserved
catalytic domains but distinct N-terminal ACT domains
(this CD) and differ in their mechanisms of regulation.
One commonality is that all three eukaryotic enzymes are
regulated in part by the phosphorylation of serine
residues N-terminal of the ACT domain. Members of this
CD belong to the superfamily of ACT regulatory domains.
Length = 74
Score = 30.6 bits (70), Expect = 0.80
Identities = 13/24 (54%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 926 PKGGVGALIKALIKLFQNLGGNLI 949
K VGAL +AL KLF+ G NL
Sbjct: 7 LKEEVGALARAL-KLFEEFGVNLT 29
>gnl|CDD|223651 COG0578, GlpA, Glycerol-3-phosphate dehydrogenase [Energy
production and conversion].
Length = 532
Score = 33.4 bits (77), Expect = 0.89
Identities = 12/35 (34%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 310 FDKIRIFSGAGIGGIALAIRLQTAGISTIILEQRD 344
FD I I G GI G +A G+ ++E+ D
Sbjct: 13 FDVIVI--GGGITGAGIARDAAGRGLKVALVEKGD 45
Score = 33.4 bits (77), Expect = 0.89
Identities = 12/35 (34%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 710 FDKIRIFSGAGIGGIALAIRLQTAGISTIILEQRD 744
FD I I G GI G +A G+ ++E+ D
Sbjct: 13 FDVIVI--GGGITGAGIARDAAGRGLKVALVEKGD 45
>gnl|CDD|223523 COG0446, HcaD, Uncharacterized NAD(FAD)-dependent dehydrogenases
[General function prediction only].
Length = 415
Score = 33.0 bits (75), Expect = 1.1
Identities = 10/32 (31%), Positives = 15/32 (46%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGR 749
GAG G+ A G ++E D+ GG+
Sbjct: 143 GAGPIGLEAAEAAAKRGKKVTLIEAADRLGGQ 174
>gnl|CDD|232791 TIGR00031, UDP-GALP_mutase, UDP-galactopyranose mutase. This
enzyme is involved in the conversion of UDP-GALP into
UDP-GALF through a 2-keto intermediate. It contains FAD
as a cofactor. The gene is known as glf, ceoA, and rfbD.
It is known experimentally in E. coli, Mycobacterium
tuberculosis, and Klebsiella pneumoniae [Cell envelope,
Biosynthesis and degradation of surface polysaccharides
and lipopolysaccharides].
Length = 377
Score = 33.2 bits (76), Expect = 1.1
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 715 IFSGAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYKQDGFIF 760
I GAG+ GI LA L +++E+R+ GG Y + +F
Sbjct: 5 IIVGAGLSGIVLANILAQLNKRVLVVEKRNHIGGNCYDEVDETILF 50
>gnl|CDD|168661 PRK06753, PRK06753, hypothetical protein; Provisional.
Length = 373
Score = 32.7 bits (75), Expect = 1.4
Identities = 22/72 (30%), Positives = 29/72 (40%), Gaps = 16/72 (22%)
Query: 712 KIRIFSGAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYKQDGFIFDAGPTVITDPN 771
KI I GAGIGG+ A LQ G + E+ + + G + N
Sbjct: 2 KIAII-GAGIGGLTAAALLQEQGHEVKVFEKNESVK-------------EVGAGIGIGDN 47
Query: 772 SIKLL--FDLSK 781
IK L DL+K
Sbjct: 48 VIKKLGNHDLAK 59
Score = 32.0 bits (73), Expect = 2.3
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 312 KIRIFSGAGIGGIALAIRLQTAGISTIILEQRDKLS 347
KI I GAGIGG+ A LQ G + E+ + +
Sbjct: 2 KIAII-GAGIGGLTAAALLQEQGHEVKVFEKNESVK 36
>gnl|CDD|234144 TIGR03197, MnmC_Cterm, tRNA U-34 5-methylaminomethyl-2-thiouridine
biosynthesis protein MnmC, C-terminal domain. In
Escherichia coli, the protein previously designated YfcK
is now identified as the bifunctional enzyme MnmC. It
acts, following the action of the heterotetramer of GidA
and MnmE, in the modification of U-34 of certain tRNA to
5-methylaminomethyl-2-thiouridine (mnm5s2U). In other
bacterial, the corresponding proteins are usually but
always found as a single polypeptide chain, but
occasionally as the product of tandem genes. This model
represents the C-terminal region of the multifunctional
protein [Protein synthesis, tRNA and rRNA base
modification].
Length = 381
Score = 32.6 bits (75), Expect = 1.5
Identities = 15/63 (23%), Positives = 32/63 (50%), Gaps = 5/63 (7%)
Query: 922 GIWFPKGGV---GALIKALIKLFQNLGGNLILNSQVISIYVNNNKVNKVHLKNGQIFDAD 978
G++FP+GG L +AL+ L N+++ S+ + + ++ NG++ A
Sbjct: 123 GLFFPQGGWLSPPQLCRALLAHAGI-RLTLHFNTEITSL-ERDGEGWQLLDANGEVIAAS 180
Query: 979 IIV 981
++V
Sbjct: 181 VVV 183
>gnl|CDD|217590 pfam03486, HI0933_like, HI0933-like protein.
Length = 405
Score = 32.5 bits (75), Expect = 1.5
Identities = 11/49 (22%), Positives = 27/49 (55%)
Query: 933 LIKALIKLFQNLGGNLILNSQVISIYVNNNKVNKVHLKNGQIFDADIIV 981
++ AL+ + LG + ++V+S+ +++ +V G+ +AD +V
Sbjct: 110 IVDALLNELKELGVKIRTRTRVLSVEKDDDGRFRVDTDGGEELEADSLV 158
>gnl|CDD|224550 COG1635, THI4, Ribulose 1,5-bisphosphate synthetase, converts PRPP
to RuBP, flavoprotein [Carbohydrate transport and
metabolism].
Length = 262
Score = 32.3 bits (74), Expect = 1.5
Identities = 15/51 (29%), Positives = 24/51 (47%)
Query: 698 IIRNFYANKLSFFDKIRIFSGAGIGGIALAIRLQTAGISTIILEQRDKPGG 748
I ++ + L + + I GAG G+ A L AG+ I E++ GG
Sbjct: 17 ITERYFEDLLDYLESDVIIVGAGPSGLTAAYYLAKAGLKVAIFERKLSFGG 67
>gnl|CDD|162820 TIGR02356, adenyl_thiF, thiazole biosynthesis adenylyltransferase
ThiF, E. coli subfamily. Members of the HesA/MoeB/ThiF
family of proteins (pfam00899) include a number of
members encoded in the midst of thiamine biosynthetic
operons. This mix of known and putative ThiF proteins
shows a deep split in phylogenetic trees, with the
Escherichia. coli ThiF and the E. coli MoeB proteins
seemingly more closely related than E. coli ThiF and
Campylobacter (for example) ThiF. This model represents
the more widely distributed clade of ThiF proteins such
found in E. coli [Biosynthesis of cofactors, prosthetic
groups, and carriers, Thiamine].
Length = 202
Score = 31.6 bits (72), Expect = 1.9
Identities = 22/72 (30%), Positives = 32/72 (44%), Gaps = 11/72 (15%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRDKLSWINLKFQ--FG---VGYPNTNQGLWNSIIA 372
GAG G A+ L AG+ TI++ D + NL+ Q F VG P + A
Sbjct: 28 GAGGLGSPAALYLAGAGVGTIVIVDDDHVDLSNLQRQILFTEEDVGRPKV------EVAA 81
Query: 373 WYLKQYNPKLNV 384
L++ N + V
Sbjct: 82 QRLRELNSDIQV 93
>gnl|CDD|236802 PRK10942, PRK10942, serine endoprotease; Provisional.
Length = 473
Score = 32.4 bits (74), Expect = 2.0
Identities = 27/98 (27%), Positives = 43/98 (43%), Gaps = 21/98 (21%)
Query: 889 LKQAFSFNSLFI-GGNPFSTSSIYTLIHALEYEWGIWFPKGGVGALIKALIKLFQNLGGN 947
+Q F NS F G+PF +S F +GG G + F LG
Sbjct: 71 FQQFFGDNSPFCQEGSPFQSSP---------------FCQGGQGGNGGGQQQKFMALGSG 115
Query: 948 LILNSQVISIYVNNNKVN-----KVHLKNGQIFDADII 980
+I+++ + NN+ V+ KV L +G+ FDA ++
Sbjct: 116 VIIDADKGYVVTNNHVVDNATKIKVQLSDGRKFDAKVV 153
>gnl|CDD|131413 TIGR02360, pbenz_hydroxyl, 4-hydroxybenzoate 3-monooxygenase.
Members of this family are the enzyme 4-hydroxybenzoate
3-monooxygenase, also called p-hydroxybenzoate
hydroxylase. It converts 4-hydroxybenzoate + NADPH +
molecular oxygen to protocatechuate + NADPH + water. It
contains monooxygenase (pfam01360) and FAD binding
(pfam01494) domains. Pathways that contain this enzyme
include the protocatechuate 4,5-degradation pathway
[Energy metabolism, Other].
Length = 390
Score = 32.0 bits (73), Expect = 2.3
Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 4/35 (11%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYV 752
GAG G+ L L AGI +ILE++ R YV
Sbjct: 9 GAGPSGLLLGQLLHKAGIDNVILERQS----RDYV 39
>gnl|CDD|235727 PRK06183, mhpA, 3-(3-hydroxyphenyl)propionate hydroxylase;
Validated.
Length = 500
Score = 32.2 bits (74), Expect = 2.5
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKP 746
GAG G+ LA L G+ ++LE+
Sbjct: 17 GAGPVGLTLANLLGQYGVRVLVLERWPTL 45
>gnl|CDD|235967 PRK07208, PRK07208, hypothetical protein; Provisional.
Length = 479
Score = 32.2 bits (74), Expect = 2.6
Identities = 15/46 (32%), Positives = 18/46 (39%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRAYVYKQDGFIFDAG 763
GAG G+ A L G +LE GG + G FD G
Sbjct: 11 GAGPAGLTAAYELLKRGYPVTVLEADPVVGGISRTVTYKGNRFDIG 56
Score = 31.0 bits (71), Expect = 5.6
Identities = 15/64 (23%), Positives = 31/64 (48%), Gaps = 5/64 (7%)
Query: 924 WFPKGGVGALIKALIKLFQNLGGNLILNSQVISIYVNNNK-----VNKVHLKNGQIFDAD 978
+PK G G L + + + LGG ++LN++V+ ++ + + V + AD
Sbjct: 211 RYPKLGPGQLWETAAEKLEALGGKVVLNAKVVGLHHDGDGRIAVVVVNDTDGTEETVTAD 270
Query: 979 IIVS 982
++S
Sbjct: 271 QVIS 274
>gnl|CDD|133422 cd01337, MDH_glyoxysomal_mitochondrial, Glyoxysomal and
mitochondrial malate dehydrogenases. MDH is one of the
key enzymes in the citric acid cycle, facilitating both
the conversion of malate to oxaloacetate and
replenishing levels of oxalacetate by reductive
carboxylation of pyruvate. Members of this subfamily are
localized to the glycosome and mitochondria. MDHs are
part of the NAD(P)-binding Rossmann fold superfamily,
which includes a wide variety of protein families
including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 310
Score = 31.7 bits (73), Expect = 2.6
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 6/29 (20%)
Query: 228 IAIQLAENIAKYS------ITTNQINSTV 250
I LA +AK I +N +NSTV
Sbjct: 96 IVRDLATAVAKACPKALILIISNPVNSTV 124
Score = 31.7 bits (73), Expect = 2.6
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 6/29 (20%)
Query: 628 IAIQLAENIAKYS------ITTNQINSTV 650
I LA +AK I +N +NSTV
Sbjct: 96 IVRDLATAVAKACPKALILIISNPVNSTV 124
>gnl|CDD|234978 PRK01747, mnmC, bifunctional tRNA
(mnm(5)s(2)U34)-methyltransferase/FAD-dependent
cmnm(5)s(2)U34 oxidoreductase; Reviewed.
Length = 662
Score = 32.1 bits (74), Expect = 2.7
Identities = 12/33 (36%), Positives = 15/33 (45%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRA 750
G GI G ALA+ L G + E + P A
Sbjct: 267 GGGIAGAALALALARRGWQVTLYEADEAPAQGA 299
>gnl|CDD|223567 COG0493, GltD, NADPH-dependent glutamate synthase beta chain and
related oxidoreductases [Amino acid transport and
metabolism / General function prediction only].
Length = 457
Score = 31.9 bits (73), Expect = 2.7
Identities = 12/32 (37%), Positives = 15/32 (46%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGR 749
GAG G+A A L AG + E+ GG
Sbjct: 130 GAGPAGLAAADDLSRAGHDVTVFERVALDGGL 161
>gnl|CDD|223566 COG0492, TrxB, Thioredoxin reductase [Posttranslational
modification, protein turnover, chaperones].
Length = 305
Score = 31.5 bits (72), Expect = 2.9
Identities = 10/31 (32%), Positives = 17/31 (54%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGG 748
G G G+ AI AG+ +++ + +PGG
Sbjct: 10 GGGPAGLTAAIYAARAGLKVVLILEGGEPGG 40
>gnl|CDD|226103 COG3573, COG3573, Predicted oxidoreductase [General function
prediction only].
Length = 552
Score = 31.7 bits (72), Expect = 3.0
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 715 IFSGAGIGGIALAIRLQTAGISTIILEQ--RDKPGGRAY 751
I GAG+ G+ A L AG +IL+Q GG+A+
Sbjct: 9 IVVGAGLAGLVAAAELADAGKRVLILDQEGEQNLGGQAF 47
>gnl|CDD|223636 COG0562, Glf, UDP-galactopyranose mutase [Cell envelope biogenesis,
outer membrane].
Length = 374
Score = 31.5 bits (72), Expect = 3.2
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGGRAY 751
GAG+ G +A G +I+E+R+ GG AY
Sbjct: 8 GAGLSGAVIAEVAAQLGKRVLIVEKRNHIGGNAY 41
>gnl|CDD|130628 TIGR01565, homeo_ZF_HD, homeobox domain, ZF-HD class. This model
represents a class of homoebox domain that differs
substantially from the typical homoebox domain described
in Pfam model pfam00046. It is found in both C4 and C3
plants.
Length = 58
Score = 28.3 bits (63), Expect = 3.8
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 168 KKSIKDYAIKNRWKLKNIEREEI 190
K+ ++D+A K WKLK+ REE+
Sbjct: 13 KEKMRDFAEKLGWKLKDKRREEV 35
Score = 28.3 bits (63), Expect = 3.8
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 568 KKSIKDYAIKNRWKLKNIEREEI 590
K+ ++D+A K WKLK+ REE+
Sbjct: 13 KEKMRDFAEKLGWKLKDKRREEV 35
>gnl|CDD|233671 TIGR01988, Ubi-OHases, Ubiquinone biosynthesis hydroxylase,
UbiH/UbiF/VisC/COQ6 family. This model represents a
family of FAD-dependent hydroxylases (monooxygenases)
which are all believed to act in the aerobic ubiquinone
biosynthesis pathway. A separate set of hydroxylases, as
yet undiscovered, are believed to be active under
anaerobic conditions. In E. coli three enzyme activities
have been described, UbiB (which acts first at position
6, see TIGR01982), UbiH (which acts at position 4,) and
UbiF (which acts at position 5,). UbiH and UbiF are
similar to one another and form the basis of this
subfamily. Interestingly, E. coli contains another
hydroxylase gene, called visC, that is highly similar to
UbiF, adjacent to UbiH and, when mutated, results in a
phenotype similar to that of UbiH (which has also been
named visB). Several other species appear to have three
homologs in this family, although they assort themselves
differently on phylogenetic trees (e.g. Xylella and
Mesorhizobium) making it difficult to ascribe a specific
activity to each one. Eukaryotes appear to have only a
single homolog in this subfamily (COQ6,) which
complements UbiH, but also possess a non-orthologous
gene, COQ7 which complements UbiF [Biosynthesis of
cofactors, prosthetic groups, and carriers, Menaquinone
and ubiquinone].
Length = 387
Score = 31.0 bits (71), Expect = 4.7
Identities = 18/66 (27%), Positives = 29/66 (43%), Gaps = 9/66 (13%)
Query: 715 IFSGAGIGGIALAIRLQTAG-ISTIILEQRDKPGGRAYVYKQDGFIFDAGPTVITDPNSI 773
+ G G G+ALA+ L +G + ++E P G FD + ++ SI
Sbjct: 3 VIVGGGPVGLALALALARSGGLKVALIEATPLP-----APADPG--FDNRVSALS-AASI 54
Query: 774 KLLFDL 779
+LL L
Sbjct: 55 RLLEKL 60
>gnl|CDD|180582 PRK06475, PRK06475, salicylate hydroxylase; Provisional.
Length = 400
Score = 30.9 bits (70), Expect = 4.9
Identities = 12/40 (30%), Positives = 23/40 (57%)
Query: 315 IFSGAGIGGIALAIRLQTAGISTIILEQRDKLSWINLKFQ 354
+ +GAG+ G++ A+ L G + I+E+ +LS + Q
Sbjct: 6 LIAGAGVAGLSAALELAARGWAVTIIEKAQELSEVGAGLQ 45
>gnl|CDD|236630 PRK09853, PRK09853, putative selenate reductase subunit YgfK;
Provisional.
Length = 1019
Score = 31.1 bits (71), Expect = 4.9
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 718 GAGIGGIALAIRLQTAGISTIILEQRDKPGG 748
GAG G+A A L AG + E+ + GG
Sbjct: 546 GAGPAGLAAAYFLARAGHPVTVFEREENAGG 576
>gnl|CDD|216319 pfam01134, GIDA, Glucose inhibited division protein A.
Length = 391
Score = 31.0 bits (71), Expect = 4.9
Identities = 10/48 (20%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 934 IKALIKLFQNLGGNLILNSQVISIYVNNNKVNKVHLKNGQIFDADIIV 981
+ ++ NL ++ +V + N KV V ++G+ + A +V
Sbjct: 101 MTETLENHPNLT---LIQGEVTDLIPENGKVKGVVTEDGEEYKAKAVV 145
>gnl|CDD|220037 pfam08839, CDT1, DNA replication factor CDT1 like. CDT1 is a
component of the replication licensing system and
promotes the loading of the mini-chromosome maintenance
complex onto chromatin. Geminin is an inhibitor of CDT1
and prevents inappropriate re-initiation of replication
on an already fired origin. This region of CDT1 binds to
Geminin.
Length = 163
Score = 30.1 bits (68), Expect = 5.2
Identities = 14/57 (24%), Positives = 21/57 (36%), Gaps = 17/57 (29%)
Query: 1023 LSEQYTHLAHH----------------TIFFPSNYKKSIENIFGKNFSRDNLSIYLH 1063
L E+Y LA FP K +++ + K FS D+L+ H
Sbjct: 1 LPEKYEVLAEFFKGLDTVVRMLHNRGEKPTFP-KLKPAVQRMSRKRFSEDHLAQIKH 56
>gnl|CDD|213807 TIGR03378, glycerol3P_GlpB, glycerol-3-phosphate dehydrogenase,
anaerobic, B subunit. Members of this protein family
are the B subunit, product of the glpB gene, of a
three-subunit, membrane-anchored, FAD-dependent
anaerobic glycerol-3-phosphate dehydrogenase [Energy
metabolism, Anaerobic].
Length = 419
Score = 30.8 bits (70), Expect = 5.9
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 310 FDKIRIFSGAGIGGIALAIRLQTAGISTIILEQ 342
FD I I G G+ G++ A+RL AG I+
Sbjct: 1 FDVIII--GGGLAGLSCALRLAEAGKKCAIIAA 31
Score = 30.8 bits (70), Expect = 5.9
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 710 FDKIRIFSGAGIGGIALAIRLQTAGISTIILEQ 742
FD I I G G+ G++ A+RL AG I+
Sbjct: 1 FDVIII--GGGLAGLSCALRLAEAGKKCAIIAA 31
>gnl|CDD|235798 PRK06416, PRK06416, dihydrolipoamide dehydrogenase; Reviewed.
Length = 462
Score = 30.9 bits (71), Expect = 6.1
Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 710 FDKIRIFSGAGIGGIALAIRLQTAGISTIILEQRDKPGG 748
+D I I GAG GG AIR G+ I+E ++K GG
Sbjct: 5 YDVIVI--GAGPGGYVAAIRAAQLGLKVAIVE-KEKLGG 40
>gnl|CDD|236158 PRK08132, PRK08132, FAD-dependent oxidoreductase; Provisional.
Length = 547
Score = 30.6 bits (70), Expect = 6.7
Identities = 14/30 (46%), Positives = 19/30 (63%)
Query: 318 GAGIGGIALAIRLQTAGISTIILEQRDKLS 347
GAG G+ALAI L G+ ++L+ D LS
Sbjct: 30 GAGPVGLALAIDLAQQGVPVVLLDDDDTLS 59
>gnl|CDD|130444 TIGR01377, soxA_mon, sarcosine oxidase, monomeric form. Sarcosine
oxidase catalyzes the oxidative demethylation of
sarcosine to glycine. The reaction converts
tetrahydrofolate to 5,10-methylene-tetrahydrofolate. The
enzyme is known in monomeric and heterotetrameric
(alpha,beta,gamma,delta) forms [Energy metabolism, Amino
acids and amines].
Length = 380
Score = 30.6 bits (69), Expect = 6.8
Identities = 18/40 (45%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 710 FDKIRIFSGAGIGGIALAIRLQTAGISTIILEQRDKPGGR 749
FD I + GAGI G A L G T++LEQ D P R
Sbjct: 1 FDVIVV--GAGIMGCFAAYHLAKHGKKTLLLEQFDLPHSR 38
>gnl|CDD|179979 PRK05257, PRK05257, malate:quinone oxidoreductase; Validated.
Length = 494
Score = 30.5 bits (70), Expect = 7.1
Identities = 9/31 (29%), Positives = 19/31 (61%)
Query: 10 DFILIGAGLWNSIIAWYLKQYNPKLNVLLLE 40
D +LIG G+ ++ + LK+ P+ ++ + E
Sbjct: 7 DVVLIGGGIMSATLGTLLKELEPEWSITMFE 37
>gnl|CDD|188533 TIGR04018, Bthiol_YpdA, putative bacillithiol system
oxidoreductase, YpdA family. Members of this protein
family, including YpdA from Bacillus subtilis, are
apparent oxidoreductases present only in species with an
active bacillithiol system. They have been suggested
actually to be thiol disulfide oxidoreductases (TDOR),
although the evidence is incomplete [Unknown function,
Enzymes of unknown specificity].
Length = 316
Score = 30.2 bits (69), Expect = 7.8
Identities = 13/24 (54%), Positives = 17/24 (70%)
Query: 318 GAGIGGIALAIRLQTAGISTIILE 341
GAG G+A AI Q AG+S +I+E
Sbjct: 6 GAGPCGLACAIEAQKAGLSYLIIE 29
Score = 30.2 bits (69), Expect = 7.8
Identities = 13/24 (54%), Positives = 17/24 (70%)
Query: 718 GAGIGGIALAIRLQTAGISTIILE 741
GAG G+A AI Q AG+S +I+E
Sbjct: 6 GAGPCGLACAIEAQKAGLSYLIIE 29
>gnl|CDD|130387 TIGR01320, mal_quin_oxido, malate:quinone-oxidoreductase. This
membrane-associated enzyme is an alternative to the
better-known NAD-dependent malate dehydrogenase as part
of the TCA cycle. The reduction of a quinone rather
than NAD+ makes the reaction essentially irreversible
in the direction of malate oxidation to oxaloacetate.
Both forms of malate dehydrogenase are active in E.
coli; disruption of this form causes less phenotypic
change. In some bacteria, this form is the only or the
more important malate dehydrogenase [Energy metabolism,
TCA cycle].
Length = 483
Score = 30.6 bits (69), Expect = 8.1
Identities = 11/36 (30%), Positives = 22/36 (61%)
Query: 10 DFILIGAGLWNSIIAWYLKQYNPKLNVLLLELSSSV 45
D +LIGAG+ ++ + L++ P ++ L+E +V
Sbjct: 2 DVVLIGAGIMSATLGVLLRELEPNWSITLIERLDAV 37
>gnl|CDD|183547 PRK12475, PRK12475, thiamine/molybdopterin biosynthesis MoeB-like
protein; Provisional.
Length = 338
Score = 30.1 bits (68), Expect = 8.9
Identities = 19/48 (39%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 311 DKIR----IFSGAGIGGIALAIRLQTAGISTIILEQRDKLSWINLKFQ 354
KIR + GAG G A A L AGI + + RD + W NL+ Q
Sbjct: 20 RKIREKHVLIVGAGALGAANAEALVRAGIGKLTIADRDYVEWSNLQRQ 67
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
0.324 0.140 0.421
Gapped
Lambda K H
0.267 0.0685 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 74,182,129
Number of extensions: 7634656
Number of successful extensions: 9466
Number of sequences better than 10.0: 1
Number of HSP's gapped: 9383
Number of HSP's successfully gapped: 197
Length of query: 1428
Length of database: 10,937,602
Length adjustment: 109
Effective length of query: 1319
Effective length of database: 6,103,016
Effective search space: 8049878104
Effective search space used: 8049878104
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 65 (28.9 bits)