RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4112
(284 letters)
>gnl|CDD|235000 PRK02106, PRK02106, choline dehydrogenase; Validated.
Length = 560
Score = 166 bits (422), Expect = 2e-47
Identities = 91/236 (38%), Positives = 118/236 (50%), Gaps = 38/236 (16%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLESG-EDE--NIYTNIPL-LAHFNSLTHFN 109
EYD++IIG G G V+ANRLSE+P VLLLE+G D + + +P LA +N
Sbjct: 5 EYDYIIIGAGSAGCVLANRLSEDPDVSVLLLEAGGPDYRWDFFIQMPAALAFPLQGKRYN 64
Query: 110 WGYKLEKNEEHPQCLGMYNDQCPCPRGKGLGGSSILNYMIYTRGNKKDYDTYEA-AGNKG 168
W Y+ E E H M N + CPRGK LGGSS +N M+Y RGN DYD + G +G
Sbjct: 65 WAYETEP-EPH-----MNNRRMECPRGKVLGGSSSINGMVYIRGNAMDYDNWAELPGLEG 118
Query: 169 WGYDSVLKYFLKSENNTSEFLDADIHSREGPLKVTNIPYQNLLTEKFTQAKEGPLKVTNI 228
W Y L YF K+E T + + D +GPL VT TN
Sbjct: 119 WSYADCLPYFKKAE--TRDGGEDDYRGGDGPLSVTR-----------------GKPGTNP 159
Query: 229 PYQNLLTEKFTQAACELGY-RIYDYTGIEPATEGFSKLQSTLSKGQRYSANRAYLK 283
+Q F +A + GY R D G EGF + T++ G+R+SA RAYL
Sbjct: 160 LFQ-----AFVEAGVQAGYPRTDDLNG--YQQEGFGPMDRTVTNGRRWSAARAYLD 208
>gnl|CDD|225186 COG2303, BetA, Choline dehydrogenase and related flavoproteins
[Amino acid transport and metabolism].
Length = 542
Score = 148 bits (376), Expect = 3e-41
Identities = 78/240 (32%), Positives = 110/240 (45%), Gaps = 40/240 (16%)
Query: 51 ILSEYDFVIIGGGVGGSVVANRLSENPKWKVLLLESG-EDENIYTNIP--LLAHFNSLTH 107
+ EYD+VI+G G GSV+A RLS+ VL+LE+G D +P N +
Sbjct: 4 MKMEYDYVIVGSGSAGSVLAARLSD-AGLSVLVLEAGGPDRRPLIQMPAAYAFLMNGPRY 62
Query: 108 FNWGYKLEKNEEHPQCLGMYNDQCPCPRGKGLGGSSILNYMIYTRGNKKDYDTYEAA-GN 166
+WG++ E P + + PRGK LGGSS +N M+Y RG+ +D+D + G
Sbjct: 63 -DWGFRT---EPEP---HLRGRELAWPRGKVLGGSSSINGMVYVRGHPEDFDAWAQESGA 115
Query: 167 KGWGYDSVLKYFLKSENNT--SEFLDADIHSREGPLKVTNIPYQNLLTEKFTQAKEGPLK 224
GW YD VL YF ++E+ H GPL V+ N + F +A E
Sbjct: 116 PGWPYDDVLPYFKRAEDLLGVGGQDLRTWHGGGGPLPVSPPRSPNPIARAFIEAGE---- 171
Query: 225 VTNIPYQNLLTEKFTQAACELGYRIY-DYTGIEPATEGFSKLQSTLSKGQRYSANRAYLK 283
+LG+ D G + EGF T+ G+R+SA RAYLK
Sbjct: 172 -------------------QLGFPTTPDPNGAD--QEGFGPYCVTICNGRRWSAARAYLK 210
>gnl|CDD|233581 TIGR01810, betA, choline dehydrogenase. Choline dehydrogenase
catalyzes the conversion of exogenously supplied choline
into the intermediate glycine betaine aldehyde, as part
of a two-step oxidative reaction leading to the
formation of osmoprotectant betaine. This enzymatic
system can be found in both gram-positive and
gram-negative bacteria. As in Escherichia coli ,
Staphylococcus xylosus , and Sinorhizobium meliloti,
this enzyme is found associated in a transciptionally
co-induced gene cluster with betaine aldehyde
dehydrogenase, the second catalytic enzyme in this
reaction. Other gram-positive organisms have been shown
to employ a different enzymatic system, utlizing a
soluable choline oxidase or type III alcohol
dehydrogenase instead of choline dehydrogenase. This
enzyme is a member of the GMC oxidoreductase family
(pfam00732 and pfam05199), sharing a common
evoluntionary origin and enzymatic reaction with alcohol
dehydrogenase. Outgrouping from this model, Caulobacter
crescentus shares sequence homology with choline
dehydrogenase, yet other genes participating in this
enzymatic reaction have not currently been identified
[Cellular processes, Adaptations to atypical
conditions].
Length = 532
Score = 137 bits (346), Expect = 5e-37
Identities = 83/234 (35%), Positives = 114/234 (48%), Gaps = 39/234 (16%)
Query: 56 DFVIIGGGVGGSVVANRLSENPKWKVLLLESGEDE---NIYTNIPL-LAHFNSLTHFNWG 111
D++IIGGG GSV+A RLSE+ VL+LE+G + ++ +P LA+ +NW
Sbjct: 1 DYIIIGGGSAGSVLAGRLSEDVSNSVLVLEAGGSDYPWDLLIQMPAALAYPAGNKRYNWI 60
Query: 112 YKLEKNEEHPQCLGMYNDQCPCPRGKGLGGSSILNYMIYTRGNKKDYDTY-EAAGNKGWG 170
Y+ E E H M N + RGK LGGSS +N MIY RGN DY+ + + G + W
Sbjct: 61 YETEP-EPH-----MNNRRVGHARGKVLGGSSSINGMIYQRGNPMDYEKWAKPEGMESWD 114
Query: 171 YDSVLKYFLKSENNTSEFLDADIHSREGPLKVTNIPYQNLLTEKFTQAKEGPLKVTNIPY 230
Y L Y+ + E + G EK + +GP+KV P
Sbjct: 115 YADCLPYYKRLE-----------TTFGG--------------EKPYRGHDGPIKVRRGPA 149
Query: 231 QNLLTEKFTQAACELGY-RIYDYTGIEPATEGFSKLQSTLSKGQRYSANRAYLK 283
N L + F +A E GY + D G EGF + ST+ G+R SA RAYL
Sbjct: 150 DNPLFQAFIEAGVEAGYNKTPDVNGFR--QEGFGPMDSTVHNGRRVSAARAYLH 201
>gnl|CDD|234421 TIGR03970, Rv0697, dehydrogenase, Rv0697 family. This model
describes a set of dehydrogenases belonging to the
glucose-methanol-choline oxidoreductase (GMC
oxidoreductase) family. Members of the present family
are restricted to Actinobacterial genome contexts
containing also members of families TIGR03962 and
TIGR03969 (the mycofactocin system), and are proposed to
be uniform in function.
Length = 487
Score = 90.7 bits (225), Expect = 1e-20
Identities = 63/235 (26%), Positives = 92/235 (39%), Gaps = 43/235 (18%)
Query: 56 DFVIIGGGVGGSVVANRLSENPKWKVLLLESG----EDENIYTNI--PLLAHFNSLTHFN 109
D +++GGG G VVA RLSE+P V +LE+G + + + L +
Sbjct: 2 DVLVVGGGSAGCVVAARLSEDPSCTVTVLEAGPGYRDPSRLPAQLTDGLRLPIGPASPVV 61
Query: 110 WGYKLEKNEEHPQCLGMYNDQCPCPRGKGLGGSSILNYMIYTRGNKKDYDTYEAAGNKGW 169
W Y +E + + + RG+ LGGS +N + R D+D A GW
Sbjct: 62 WRYGVELTDGPRRASAIV-------RGRVLGGSGAVNGGYFCRALPADFD---AWPIPGW 111
Query: 170 GYDSVLKYFLKSENNTSEFLDADIHSREGPLKVTNIPYQNLLTEKFTQAKEGPLKVTNIP 229
+D VL +F E D D +GPL GP+ V
Sbjct: 112 SWDDVLPHFRAIET------DLDF---DGPL----------------HGTAGPIPVRRTA 146
Query: 230 YQNLLTEKFTQAACELGY-RIYDYTGIEP-ATEGFSKLQSTLSKGQRYSANRAYL 282
+ ++ F AA G+ I D G P A G + + G+R S AYL
Sbjct: 147 ELDGISAAFVAAALGAGFGWIADLNGSGPDAPTGVGAVPLNVDGGRRVSTAVAYL 201
>gnl|CDD|216089 pfam00732, GMC_oxred_N, GMC oxidoreductase. This family of
proteins bind FAD as a cofactor.
Length = 218
Score = 68.8 bits (169), Expect = 6e-14
Identities = 39/155 (25%), Positives = 51/155 (32%), Gaps = 46/155 (29%)
Query: 133 CPRGKGLGGSSILNYMIYTRGNKKDYDT-YEAAGNKGWGYDSVLKYFLKSENNTSEFLDA 191
P G +GG S +N+ R D G +GWGYD L Y K
Sbjct: 21 LPAGSTVGGGSSVNWSACIRTPAAVLDEWASEFGLEGWGYDDYLPYMDKV---------- 70
Query: 192 DIHSREGPLKVTNIPYQNLLTEKFTQAKEGPLKVTNIPYQNLLTEKFTQAACELGYRIY- 250
EGPL VT T ++ L + +AA ELGY +
Sbjct: 71 -----EGPLGVT----------------------TKGIEESPLNQALLKAAEELGYPVEA 103
Query: 251 ---DYTGIEPATEGFSKLQSTLSKGQRYSANRAYL 282
+ G GF L G + S R +L
Sbjct: 104 VPRNSNGCHY--CGFCGLGC--PTGAKQSTARTWL 134
>gnl|CDD|224169 COG1249, Lpd, Pyruvate/2-oxoglutarate dehydrogenase complex,
dihydrolipoamide dehydrogenase (E3) component, and
related enzymes [Energy production and conversion].
Length = 454
Score = 41.8 bits (99), Expect = 3e-04
Identities = 17/35 (48%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLESGE 88
EYD V+IG G G V A R ++ KV L+E GE
Sbjct: 4 EYDVVVIGAGPAGYVAAIRAAQLGL-KVALVEKGE 37
>gnl|CDD|223652 COG0579, COG0579, Predicted dehydrogenase [General function
prediction only].
Length = 429
Score = 41.1 bits (97), Expect = 4e-04
Identities = 18/33 (54%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 54 EYDFVIIGGGVGGSVVANRLSE-NPKWKVLLLE 85
+YD VIIGGG+ G+ A LSE P V LLE
Sbjct: 3 DYDVVIIGGGIMGAATAYELSEYEPDLSVALLE 35
>gnl|CDD|215420 PLN02785, PLN02785, Protein HOTHEAD.
Length = 587
Score = 40.2 bits (94), Expect = 0.001
Identities = 32/108 (29%), Positives = 51/108 (47%), Gaps = 17/108 (15%)
Query: 53 SEYDFVIIGGGVGGSVVANRLSENPKWKVLLLESGEDENIYTNIPLLAHFNSLTHFNWGY 112
S YD++++GGG G +A LS+N + VLLLE G + N A+ + L +F+ G
Sbjct: 54 SAYDYIVVGGGTAGCPLAATLSQN--FSVLLLERGGVP--FGN----ANVSFLENFHIGL 105
Query: 113 KLEKNEEHPQCL----GMYNDQCPCPRGKGLGGSSILNYMIYTRGNKK 156
Q G+ N R + LGG + +N Y+R + +
Sbjct: 106 ADTSPTSASQAFISTDGVIN-----ARARVLGGGTCINAGFYSRASTR 148
>gnl|CDD|240384 PTZ00367, PTZ00367, squalene epoxidase; Provisional.
Length = 567
Score = 39.4 bits (92), Expect = 0.002
Identities = 15/32 (46%), Positives = 23/32 (71%), Gaps = 1/32 (3%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
+YD +I+GG + G V+A LS+ + KVL+LE
Sbjct: 33 DYDVIIVGGSIAGPVLAKALSKQGR-KVLMLE 63
>gnl|CDD|205628 pfam13450, NAD_binding_8, NAD(P)-binding Rossmann-like domain.
Length = 66
Score = 35.5 bits (83), Expect = 0.002
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 59 IIGGGVGGSVVANRLSENPKWKVLLLESGED 89
I+G G+ G V A L++ VL+LE +
Sbjct: 1 IVGAGLSGLVAAYLLAKR-GKDVLVLEKRDR 30
>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 = 38.7 bits (91), Expect = 0.002
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 56 DFVIIGGGVGGSVVANRLSENPKWKVLLLESG 87
D VI+GGG G +A L+ + KV L+E+
Sbjct: 1 DIVIVGGGPVGLALALALARSGGLKVALIEAT 32
>gnl|CDD|235774 PRK06292, PRK06292, dihydrolipoamide dehydrogenase; Validated.
Length = 460
Score = 38.6 bits (91), Expect = 0.002
Identities = 15/35 (42%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLESGE 88
+YD ++IG G G V A R ++ K KV L+E G
Sbjct: 3 KYDVIVIGAGPAGYVAARRAAKLGK-KVALIEKGP 36
>gnl|CDD|223737 COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino
acid transport and metabolism].
Length = 387
Score = 38.7 bits (90), Expect = 0.003
Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 53 SEYDFVIIGGGVGGSVVANRLSENPKWKVLLLESGE 88
+ D VIIGGG+ G A L+E V +LE+GE
Sbjct: 3 MKMDVVIIGGGIVGLSAAYYLAERG-ADVTVLEAGE 37
>gnl|CDD|223717 COG0644, FixC, Dehydrogenases (flavoproteins) [Energy production
and conversion].
Length = 396
Score = 38.2 bits (89), Expect = 0.003
Identities = 17/35 (48%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLESGE 88
EYD VI+G G GS A RL++ VL+LE G
Sbjct: 3 EYDVVIVGAGPAGSSAARRLAKA-GLDVLVLEKGS 36
>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 = 37.3 bits (87), Expect = 0.005
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 56 DFVIIGGGVGGSVVANRLSENPKWKVLLLESGE 88
D V+IGGG+ G A L+ V LLE G+
Sbjct: 1 DVVVIGGGIVGLSTAYELAR-RGLSVTLLERGD 32
>gnl|CDD|181346 PRK08275, PRK08275, putative oxidoreductase; Provisional.
Length = 554
Score = 37.0 bits (86), Expect = 0.009
Identities = 16/33 (48%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 54 EYDFVIIGGGVGGSVVANRLSE-NPKWKVLLLE 85
E D ++IGGG G + A + E NP +VLLLE
Sbjct: 9 ETDILVIGGGTAGPMAAIKAKERNPALRVLLLE 41
>gnl|CDD|235798 PRK06416, PRK06416, dihydrolipoamide dehydrogenase; Reviewed.
Length = 462
Score = 36.7 bits (86), Expect = 0.011
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLESGE 88
EYD ++IG G GG V A R ++ KV ++E +
Sbjct: 4 EYDVIVIGAGPGGYVAAIRAAQLGL-KVAIVEKEK 37
>gnl|CDD|183292 PRK11728, PRK11728, hydroxyglutarate oxidase; Provisional.
Length = 393
Score = 36.3 bits (85), Expect = 0.013
Identities = 16/32 (50%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 55 YDFVIIGGGVGGSVVANRLSE-NPKWKVLLLE 85
YDFVIIGGG+ G A +L E P ++ +LE
Sbjct: 3 YDFVIIGGGIVGLSTAMQLQERYPGARIAVLE 34
>gnl|CDD|223523 COG0446, HcaD, Uncharacterized NAD(FAD)-dependent dehydrogenases
[General function prediction only].
Length = 415
Score = 35.3 bits (81), Expect = 0.028
Identities = 12/47 (25%), Positives = 17/47 (36%), Gaps = 2/47 (4%)
Query: 57 FVIIGGGVGGSVVANRL-SENPKWKVLLLESGEDENIYTNIPLLAHF 102
VI+GGG G A L ++ L+ Y PL +
Sbjct: 1 IVIVGGGAAGLSAATTLRRLLLAAEITLIGREPKY-SYYRCPLSLYV 46
>gnl|CDD|185420 PTZ00058, PTZ00058, glutathione reductase; Provisional.
Length = 561
Score = 35.4 bits (81), Expect = 0.032
Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 44 IFLGNKPILSEYDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
L KP + YD ++IGGG GG A R + N KV L+E
Sbjct: 39 THLKKKPRM-VYDLIVIGGGSGGMAAARRAARNKA-KVALVE 78
>gnl|CDD|223727 COG0654, UbiH, 2-polyprenyl-6-methoxyphenol hydroxylase and
related FAD-dependent oxidoreductases [Coenzyme
metabolism / Energy production and conversion].
Length = 387
Score = 34.7 bits (80), Expect = 0.041
Identities = 11/31 (35%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 55 YDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
D I+G G G +A L+ V LLE
Sbjct: 3 LDVAIVGAGPAGLALALALARAG-LDVTLLE 32
>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 = 34.8 bits (80), Expect = 0.044
Identities = 24/88 (27%), Positives = 44/88 (50%), Gaps = 14/88 (15%)
Query: 55 YDFVIIGGGVGGSVVANRLSENPKWKVLLLE----------SGEDENIYTNI--PLLAHF 102
+D++I+G G+ G V+AN L++ K +VL++E DE I + P + H
Sbjct: 2 FDYIIVGAGLSGIVLANILAQLNK-RVLVVEKRNHIGGNCYDEVDETILFHQYGPHIFHT 60
Query: 103 NSLTHFNWGYKL-EKNEEHPQCLGMYND 129
N+ +++ E N + L +YN+
Sbjct: 61 NNQYVWDYISPFFELNNYQHRVLALYNN 88
>gnl|CDD|219686 pfam07992, Pyr_redox_2, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 283
Score = 34.3 bits (79), Expect = 0.047
Identities = 15/30 (50%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 56 DFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
D VIIGGG G A RL+ KV L+E
Sbjct: 1 DVVIIGGGPAGLAAAIRLA-RLGLKVALIE 29
>gnl|CDD|233368 TIGR01350, lipoamide_DH, dihydrolipoamide dehydrogenase. This
model describes dihydrolipoamide dehydrogenase, a
flavoprotein that acts in a number of ways. It is the
E3 component of dehydrogenase complexes for pyruvate,
2-oxoglutarate, 2-oxoisovalerate, and acetoin. It can
also serve as the L protein of the glycine cleavage
system. This family includes a few members known to
have distinct functions (ferric leghemoglobin reductase
and NADH:ferredoxin oxidoreductase) but that may be
predicted by homology to act as dihydrolipoamide
dehydrogenase as well. The motif GGXCXXXGCXP near the
N-terminus contains a redox-active disulfide.
Length = 460
Score = 34.5 bits (80), Expect = 0.051
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
YD ++IGGG GG V A R ++ KV L+E
Sbjct: 1 AYDVIVIGGGPGGYVAAIRAAQLGL-KVALVE 31
>gnl|CDD|233669 TIGR01984, UbiH, 2-polyprenyl-6-methoxyphenol 4-hydroxylase.
This model represents the FAD-dependent monoxygenase
responsible for the second hydroxylation step in the
aerobic ubiquinone bioynthetic pathway. The scope of
this model is limited to the proteobacteria. This
family is closely related to the UbiF hydroxylase which
catalyzes the final hydroxylation step. The enzyme has
also been named VisB due to a mutant VISible light
sensitive phenotype [Biosynthesis of cofactors,
prosthetic groups, and carriers, Menaquinone and
ubiquinone].
Length = 382
Score = 34.6 bits (80), Expect = 0.051
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 56 DFVIIGGGVGGSVVANRLSENPKWKVLLLES 86
D +I+GGG+ G +A LS K K+ L+E+
Sbjct: 1 DVIIVGGGLVGLSLALALSRLGKIKIALIEA 31
>gnl|CDD|224154 COG1233, COG1233, Phytoene dehydrogenase and related proteins
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 487
Score = 33.9 bits (78), Expect = 0.091
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 53 SEYDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
YD V+IG G+ G A L+ KV +LE
Sbjct: 2 PMYDVVVIGAGLNGLAAAALLARA-GLKVTVLE 33
>gnl|CDD|130488 TIGR01421, gluta_reduc_1, glutathione-disulfide reductase,
animal/bacterial. The tripeptide glutathione is an
important reductant, e.g., for maintaining the cellular
thiol/disulfide status and for protecting against
reactive oxygen species such as hydrogen peroxide.
Glutathione-disulfide reductase regenerates reduced
glutathione from oxidized glutathione (glutathione
disulfide) + NADPH. This model represents one of two
closely related subfamilies of glutathione-disulfide
reductase. Both are closely related to trypanothione
reductase, and separate models are built so each of the
three can describe proteins with conserved function.
This model describes glutathione-disulfide reductases
of animals, yeast, and a number of animal-resident
bacteria [Energy metabolism, Electron transport].
Length = 450
Score = 33.7 bits (77), Expect = 0.091
Identities = 15/35 (42%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLESGE 88
YD+++IGGG GG A R +E+ K LL+E+ +
Sbjct: 2 HYDYLVIGGGSGGIASARRAAEHGA-KALLVEAKK 35
>gnl|CDD|235787 PRK06370, PRK06370, mercuric reductase; Validated.
Length = 463
Score = 33.6 bits (78), Expect = 0.091
Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 55 YDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
YD ++IG G G +A R + KV L+E
Sbjct: 6 YDAIVIGAGQAGPPLAARAAG-LGMKVALIE 35
>gnl|CDD|233672 TIGR01989, COQ6, ubiquinone biosynthesis monooxygenase COQ6.
This model represents the monooxygenase responsible for
the 4-hydroxylateion of the phenol ring in the aerobic
biosynthesis of ubiquinone.
Length = 437
Score = 33.2 bits (76), Expect = 0.14
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 3/37 (8%)
Query: 55 YDFVIIGGGVGGSVVANRLSENPKW---KVLLLESGE 88
+D VI+GGG G +A L NP KVLLL++ +
Sbjct: 1 FDVVIVGGGPVGLALAAALGNNPLTKDLKVLLLDAVD 37
>gnl|CDD|235660 PRK05976, PRK05976, dihydrolipoamide dehydrogenase; Validated.
Length = 472
Score = 33.3 bits (77), Expect = 0.15
Identities = 18/34 (52%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLESG 87
EYD VIIGGG GG V A R + K L+E G
Sbjct: 4 EYDLVIIGGGPGGYVAAIRAGQLGL-KTALVEKG 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 = 32.3 bits (74), Expect = 0.24
Identities = 14/35 (40%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 56 DFVIIGGGVGGSVVANRLSEN-PKWKVLLLESGED 89
D VI+G G+ G ++A RL + P +VLL+++G
Sbjct: 1 DLVIVGAGLAGLLLALRLRQARPGLRVLLIDAGPG 35
>gnl|CDD|215314 PLN02576, PLN02576, protoporphyrinogen oxidase.
Length = 496
Score = 32.3 bits (74), Expect = 0.29
Identities = 11/36 (30%), Positives = 17/36 (47%)
Query: 53 SEYDFVIIGGGVGGSVVANRLSENPKWKVLLLESGE 88
S D ++G GV G A L+ VL+ E+ +
Sbjct: 11 SSKDVAVVGAGVSGLAAAYALASKHGVNVLVTEARD 46
>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 = 0.32
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 56 DFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
D IIGGG+ G+ +A L+ W+V L E
Sbjct: 262 DAAIIGGGIAGAALALALARR-GWQVTLYE 290
>gnl|CDD|223636 COG0562, Glf, UDP-galactopyranose mutase [Cell envelope
biogenesis, outer membrane].
Length = 374
Score = 31.9 bits (73), Expect = 0.32
Identities = 11/31 (35%), Positives = 23/31 (74%), Gaps = 1/31 (3%)
Query: 55 YDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
+D++I+G G+ G+V+A ++ K +VL++E
Sbjct: 2 FDYLIVGAGLSGAVIAEVAAQLGK-RVLIVE 31
>gnl|CDD|181142 PRK07846, PRK07846, mycothione reductase; Reviewed.
Length = 451
Score = 31.8 bits (73), Expect = 0.34
Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLESG 87
YD +IIG G G S++ R ++ ++ ++E G
Sbjct: 1 HYDLIIIGTGSGNSILDERFAD---KRIAIVEKG 31
>gnl|CDD|178267 PLN02661, PLN02661, Putative thiazole synthesis.
Length = 357
Score = 31.3 bits (71), Expect = 0.48
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 53 SEYDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
++ D VI+G G G A LS+NP KV ++E
Sbjct: 91 ADTDVVIVGAGSAGLSCAYELSKNPNVKVAIIE 123
>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 = 31.1 bits (71), Expect = 0.55
Identities = 14/31 (45%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 55 YDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
YD V++G G G+ A RL++ +VLLLE
Sbjct: 1 YDVVVVGAGPAGASAAYRLADK-GLRVLLLE 30
>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 = 31.3 bits (71), Expect = 0.63
Identities = 15/32 (46%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 55 YDFVIIGGGVGGSVVANRLSENPKWKVLLLES 86
YD ++IG G+GG V A +L+ KVL+LE
Sbjct: 1 YDAIVIGSGIGGLVTATQLAVKGA-KVLVLER 31
>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 = 31.0 bits (70), Expect = 0.67
Identities = 12/33 (36%), Positives = 23/33 (69%), Gaps = 1/33 (3%)
Query: 56 DFVIIGGGVGGSVVANRLSE-NPKWKVLLLESG 87
D +I+GGG+ G ++A RL P +++ ++E+G
Sbjct: 1 DCIIVGGGLAGGLIALRLQRARPDFRIRVIEAG 33
>gnl|CDD|235584 PRK05732, PRK05732, 2-octaprenyl-6-methoxyphenyl hydroxylase;
Validated.
Length = 395
Score = 30.6 bits (70), Expect = 1.00
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 4/36 (11%)
Query: 53 SEYDFVIIGGGVGGSVVA---NRLSENPKWKVLLLE 85
S D +I+GGG+ G+ +A +RLS V L+E
Sbjct: 2 SRMDVIIVGGGMAGATLALALSRLSH-GGLPVALIE 36
>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 = 30.3 bits (69), Expect = 1.1
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 56 DFVIIGGGVGGSVVANRLSENPKWKVLLLESGE 88
D V+IG G+ G A +E KV ++E G+
Sbjct: 1 DVVVIGSGLAGLAAALEAAEAGL-KVAVVEKGQ 32
>gnl|CDD|236967 PRK11749, PRK11749, dihydropyrimidine dehydrogenase subunit A;
Provisional.
Length = 457
Score = 30.5 bits (70), Expect = 1.1
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 4/41 (9%)
Query: 31 KYLRQQGLEFRENIFLGN----KPILSEYDFVIIGGGVGGS 67
+ L + G+E R N +G + + YD V IG G G
Sbjct: 198 ERLLKLGVEIRTNTEVGRDITLDELRAGYDAVFIGTGAGLP 238
>gnl|CDD|183139 PRK11445, PRK11445, putative oxidoreductase; Provisional.
Length = 351
Score = 30.0 bits (68), Expect = 1.2
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
YD IIG G GS +A L+ K KV+ ++
Sbjct: 1 HYDVAIIGLGPAGSALARLLAG--KMKVIAID 30
>gnl|CDD|223981 COG1053, SdhA, Succinate dehydrogenase/fumarate reductase,
flavoprotein subunit [Energy production and
conversion].
Length = 562
Score = 30.4 bits (69), Expect = 1.2
Identities = 14/32 (43%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
E+D V+IGGG G A +E KV LL
Sbjct: 6 EFDVVVIGGGGAGLRAAIEAAEAGL-KVALLS 36
>gnl|CDD|179979 PRK05257, PRK05257, malate:quinone oxidoreductase; Validated.
Length = 494
Score = 30.1 bits (69), Expect = 1.4
Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 53 SEYDFVIIGGGVGGSVVANRLSE-NPKWKVLLLE 85
S+ D V+IGGG+ + + L E P+W + + E
Sbjct: 4 SKTDVVLIGGGIMSATLGTLLKELEPEWSITMFE 37
>gnl|CDD|223651 COG0578, GlpA, Glycerol-3-phosphate dehydrogenase [Energy
production and conversion].
Length = 532
Score = 29.9 bits (68), Expect = 1.6
Identities = 13/34 (38%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLESG 87
E+D ++IGGG+ G+ +A + KV L+E G
Sbjct: 12 EFDVIVIGGGITGAGIARDAAGR-GLKVALVEKG 44
>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 = 29.6 bits (67), Expect = 1.7
Identities = 14/34 (41%), Positives = 22/34 (64%), Gaps = 1/34 (2%)
Query: 55 YDFVIIGGGVGGSVVANRLSENPKWKVLLLESGE 88
+D +IIGGG+ G A RL+E K K ++ +G+
Sbjct: 1 FDVIIIGGGLAGLSCALRLAEAGK-KCAIIAAGQ 33
>gnl|CDD|130383 TIGR01316, gltA, glutamate synthase (NADPH), homotetrameric. This
protein is homologous to the small subunit of NADPH and
NADH forms of glutamate synthase as found in eukaryotes
and some bacteria. This protein is found in numerous
species having no homolog of the glutamate synthase
large subunit. The prototype of the family, from
Pyrococcus sp. KOD1, was shown to be active as a
homotetramer and to require NADPH [Amino acid
biosynthesis, Glutamate family].
Length = 449
Score = 29.8 bits (67), Expect = 1.7
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 4/39 (10%)
Query: 31 KYLRQQGLEFRENIFLGN----KPILSEYDFVIIGGGVG 65
K L++ G+ FR N +G + + S+YD V IG G G
Sbjct: 191 KTLKKLGVTFRMNFLVGKTATLEELFSQYDAVFIGTGAG 229
>gnl|CDD|177909 PLN02268, PLN02268, probable polyamine oxidase.
Length = 435
Score = 29.7 bits (67), Expect = 1.8
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 58 VIIGGGVGGSVVANRLSENPKWKVLLLES 86
++IGGG+ G A L + +KV LLES
Sbjct: 4 IVIGGGIAGIAAARALH-DASFKVTLLES 31
>gnl|CDD|215992 pfam00556, LHC, Antenna complex alpha/beta subunit.
Length = 40
Score = 26.4 bits (59), Expect = 2.0
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 92 IYTNIPLLAHFNSLTHFNW 110
++ I LLAHF LT W
Sbjct: 20 VFAVIALLAHFLVLTWRPW 38
>gnl|CDD|224983 COG2072, TrkA, Predicted flavoprotein involved in K+ transport
[Inorganic ion transport and metabolism].
Length = 443
Score = 29.3 bits (66), Expect = 2.1
Identities = 10/36 (27%), Positives = 13/36 (36%), Gaps = 2/36 (5%)
Query: 55 YDFVIIGGGVGGSVVANRLS-ENPKWKVLLLESGED 89
D IIG G G A L ++ E +D
Sbjct: 9 TDVAIIGAGQSGLAAAYALKQAGVP-DFVIFEKRDD 43
>gnl|CDD|203096 pfam04820, Trp_halogenase, Tryptophan halogenase. Tryptophan
halogenase catalyzes the chlorination of tryptophan to
form 7-chlorotryptophan. This is the first step in the
biosynthesis of pyrrolnitrin, an antibiotic with
broad-spectrum anti-fungal activity. Tryptophan
halogenase is NADH-dependent.
Length = 457
Score = 29.6 bits (67), Expect = 2.2
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 11/58 (18%)
Query: 56 DFVIIGGGVGGSVVANRLSE--NPKWKVLLLESGEDENIYT------NIPLLAHFNSL 105
VI+GGG G + A L+ V L+ES E I T IP + FN +
Sbjct: 1 KIVIVGGGTAGWMAAAALARALKGGLDVTLVES---EEIGTVGVGEATIPSIRTFNRM 55
>gnl|CDD|153229 cd03135, GATase1_DJ-1, Type 1 glutamine amidotransferase
(GATase1)-like domain found in Human DJ-1. Type 1
glutamine amidotransferase (GATase1)-like domain found
in Human DJ-1. DJ-1 is involved in multiple
physiological processes including cancer, Parkinson's
disease and male fertility. It is unclear how DJ-1
functions in these. DJ-1 has been shown to possess
chaperone activity. DJ-1 is preferentially expressed in
the testis and moderately in other tissues; it is
induced together with genes involved in oxidative
stress response. The Drosophila homologue (DJ-1A) plays
an essential role in oxidative stress response and
neuronal maintenance. Inhibition of DJ-1A function
through RNAi, results in the cellular accumulation of
reactive oxygen species, organismal hypersensitivity to
oxidative stress, and dysfunction and degeneration of
dopaminergic and photoreceptor neurons. DJ-1 has lacks
enzymatic activity and the catalytic triad of typical
GATase1 domains, however it does contain the highly
conserved cysteine located at the nucelophile elbow
region typical of these domains. This cysteine been
proposed to be a site of regulation of DJ-1 activity by
oxidation. DJ-1 is a dimeric enzyme.
Length = 163
Score = 28.7 bits (65), Expect = 2.3
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 52 LSEYDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
L +YD ++I GG+ G A L++N K LL E
Sbjct: 58 LDDYDAIVIPGGLPG---AQNLADNEKLIKLLKE 88
>gnl|CDD|233850 TIGR02402, trehalose_TreZ, malto-oligosyltrehalose
trehalohydrolase. Members of this family are the
trehalose biosynthetic enzyme malto-oligosyltrehalose
trehalohydrolase, formally known as
4-alpha-D-{(1->4)-alpha-D-glucano}trehalose
trehalohydrolase (EC 3.2.1.141). It is the TreZ protein
of the TreYZ pathway for trehalose biosynthesis, and
alternative to the OtsAB system [Energy metabolism,
Biosynthesis and degradation of polysaccharides].
Length = 544
Score = 29.2 bits (66), Expect = 2.4
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 164 AGNKGWGYDSVLKY 177
G +GWGYD VL Y
Sbjct: 137 PGTRGWGYDGVLPY 150
>gnl|CDD|222141 pfam13454, NAD_binding_9, FAD-NAD(P)-binding.
Length = 153
Score = 28.3 bits (64), Expect = 2.4
Identities = 9/25 (36%), Positives = 10/25 (40%)
Query: 58 VIIGGGVGGSVVANRLSENPKWKVL 82
IIG G G V RL + L
Sbjct: 1 AIIGAGPRGLSVLERLLRRAPDRPL 25
>gnl|CDD|226103 COG3573, COG3573, Predicted oxidoreductase [General function
prediction only].
Length = 552
Score = 29.4 bits (66), Expect = 2.5
Identities = 12/39 (30%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLESGEDENI 92
D +++G G+ G V A L++ K +VL+L+ ++N+
Sbjct: 5 TADVIVVGAGLAGLVAAAELADAGK-RVLILDQEGEQNL 42
>gnl|CDD|205545 pfam13366, PDDEXK_3, PD-(D/E)XK nuclease superfamily. Members of
this family belong to the PD-(D/E)XK nuclease
superfamily.
Length = 117
Score = 27.8 bits (63), Expect = 2.5
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 14/53 (26%)
Query: 21 HNIL----LESVYQK----YLRQQGLEFRE----NIFLGNKPILSEY--DFVI 59
HN L LESVY++ LR++GL +F + Y D ++
Sbjct: 15 HNELGPGLLESVYEEALAIELRKRGLPVERQKPLPVFYKGILLGEGYRADLLV 67
>gnl|CDD|233412 TIGR01438, TGR, thioredoxin and glutathione reductase
selenoprotein. This homodimeric, FAD-containing member
of the pyridine nucleotide disulfide oxidoreductase
family contains a C-terminal motif Cys-SeCys-Gly, where
SeCys is selenocysteine encoded by TGA (in some
sequence reports interpreted as a stop codon). In some
members of this subfamily, Cys-SeCys-Gly is replaced by
Cys-Cys-Gly. The reach of the selenium atom at the
C-term arm of the protein is proposed to allow broad
substrate specificity.
Length = 484
Score = 29.4 bits (66), Expect = 2.6
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
+YD ++IGGG GG A + KV+LL+
Sbjct: 2 DYDLIVIGGGSGGLAAAKEAAAYGA-KVMLLD 32
>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 = 29.0 bits (65), Expect = 2.8
Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 55 YDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
YD +IGGG G+ A L+ + +LLE
Sbjct: 1 YDVAVIGGGPSGATAAETLARAGI-ETILLE 30
>gnl|CDD|222548 pfam14109, GldH_lipo, GldH lipoprotein. Members of this protein
family are predicted lipoproteins, exclusive to the
Bacteroidetes phylum. Proteins in this family are
typically between 155 and 167 amino acids in length.
Members include GldH, a protein linked to a type of
rapid surface gliding motility found in certain
Bacteroidetes, such as Flavobacterium johnsoniae and
Cytophaga hutchinsonii. Gliding motility appears closely
linked to chitin utilization in the model species
Flavobacterium johnsoniae. Not all Bacteroidetes with
members of this protein family may have gliding
motility.
Length = 131
Score = 27.9 bits (63), Expect = 2.9
Identities = 14/58 (24%), Positives = 24/58 (41%), Gaps = 7/58 (12%)
Query: 154 NKKDYDTYEAAGNKGWGYDSVLKYFLKSENNTSEFLDADIHSREGPLKVTN-IPYQNL 210
YD Y++ + GW + L + +TS + ++ L+ N PY NL
Sbjct: 1 ENTVYDEYQSVPDSGWEKNDTLSFEF-PITDTSGPYNLFLN-----LRNNNDYPYSNL 52
>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 = 28.9 bits (65), Expect = 3.0
Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 56 DFVIIGGGVGGSVVANRLSENPKWKVLLLESGED 89
D +IGGG G +A L+ P +V L+E
Sbjct: 1 DLAVIGGGPAGLAIALELAR-PGLRVQLIEPHPP 33
>gnl|CDD|181199 PRK08020, ubiF, 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol
hydroxylase; Reviewed.
Length = 391
Score = 28.8 bits (65), Expect = 3.2
Identities = 11/31 (35%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 55 YDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
D I+GGG+ G+ +A L+++ + V +LE
Sbjct: 6 TDIAIVGGGMVGAALALGLAQH-GFSVAVLE 35
>gnl|CDD|181564 PRK08849, PRK08849,
2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol
hydroxylase; Provisional.
Length = 384
Score = 28.6 bits (64), Expect = 3.6
Identities = 11/37 (29%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 52 LSEYDFVIIGGGVGGSVVANRLSENPKWKVLLLESGE 88
+++YD ++GGG+ G+ A ++ + V ++E GE
Sbjct: 1 MNKYDIAVVGGGMVGAATALGFAKQGR-SVAVIEGGE 36
>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 = 28.8 bits (65), Expect = 3.7
Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 18/74 (24%)
Query: 31 KYLRQQGLEFRENIFLGNKPI-----LSEYDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
+ L + G+EF+ N+ +G + I L EYD V + G G K + L +
Sbjct: 181 ELLERSGVEFKLNVRVG-RDITLEELLKEYDAVFLATGAG------------KPRPLDIP 227
Query: 86 SGEDENIYTNIPLL 99
+ + + + L
Sbjct: 228 GEDAKGVAFALDFL 241
>gnl|CDD|183782 PRK12834, PRK12834, putative FAD-binding dehydrogenase; Reviewed.
Length = 549
Score = 28.7 bits (65), Expect = 3.8
Identities = 14/38 (36%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLESGEDEN 91
+ D +++G G+ G V A L++ K +VLLL+ E+E
Sbjct: 4 DADVIVVGAGLAGLVAAAELADAGK-RVLLLDQ-ENEA 39
>gnl|CDD|180409 PRK06115, PRK06115, dihydrolipoamide dehydrogenase; Reviewed.
Length = 466
Score = 28.7 bits (64), Expect = 3.8
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 52 LSEYDFVIIGGGVGGSVVANR 72
++ YD VIIGGG GG A R
Sbjct: 1 MASYDVVIIGGGPGGYNAAIR 21
>gnl|CDD|237213 PRK12810, gltD, glutamate synthase subunit beta; Reviewed.
Length = 471
Score = 28.6 bits (65), Expect = 4.3
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 6/36 (16%)
Query: 33 LRQQGLEFRENIFLGNKPI-----LSEYDFVIIGGG 63
+ +G+EFR N+ +G K I L+EYD V +G G
Sbjct: 203 MEAEGIEFRTNVEVG-KDITAEELLAEYDAVFLGTG 237
>gnl|CDD|185416 PTZ00052, PTZ00052, thioredoxin reductase; Provisional.
Length = 499
Score = 28.6 bits (64), Expect = 4.4
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 55 YDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
YD V+IGGG GG A + + K KV L +
Sbjct: 6 YDLVVIGGGSGGMAAAKEAAAHGK-KVALFD 35
>gnl|CDD|235701 PRK06116, PRK06116, glutathione reductase; Validated.
Length = 450
Score = 28.2 bits (64), Expect = 4.7
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLES 86
+YD ++IGGG GG ANR + KV L+E+
Sbjct: 4 DYDLIVIGGGSGGIASANRAAMYGA-KVALIEA 35
>gnl|CDD|216949 pfam02254, TrkA_N, TrkA-N domain. This domain is found in a wide
variety of proteins. These protein include potassium
channels, phosphoesterases, and various other
transporters. This domain binds to NAD.
Length = 116
Score = 27.1 bits (61), Expect = 5.1
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 57 FVIIGGGVGGSVVANRLSENPKWKVLLLESGED 89
+IIG G G +A L E V++++ +
Sbjct: 1 IIIIGYGRVGRSLAEELREG-GPDVVVIDKDPE 32
>gnl|CDD|235879 PRK06854, PRK06854, adenylylsulfate reductase subunit alpha;
Validated.
Length = 608
Score = 28.3 bits (64), Expect = 5.2
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 56 DFVIIGGGVGGSVVANRLSEN-PKWKVLLLE 85
D +IIGGG+ G A E P KVL++E
Sbjct: 13 DILIIGGGMAGCGAAFEAKEWAPDLKVLIVE 43
>gnl|CDD|237360 PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional.
Length = 410
Score = 28.3 bits (64), Expect = 5.2
Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 8/60 (13%)
Query: 5 LAKLTLIVLICHV--HWTHNILL--ESVYQKYLRQQGLEFRENIFLGNKPILSEYDFVII 60
L+KL LI + H+T N +L + V + R+QG+ F E F P+L YDFV +
Sbjct: 126 LSKLNLIDFLRDYGKHFTVNRMLERDDVKSRLEREQGISFTE--F--FYPLLQAYDFVHL 181
>gnl|CDD|185278 PRK15380, PRK15380, pathogenicity island 1 protein SopD2;
Provisional.
Length = 319
Score = 28.0 bits (62), Expect = 5.2
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 3/40 (7%)
Query: 146 NYMIYTRGNKKDYDTYEAAGNKGWGYDSVLKYFLKSENNT 185
N M+++ KDYD Y+ N D++L+ +S NNT
Sbjct: 269 NTMLFSDVLNKDYDDYQ---NNKREIDAILRRIYRSHNNT 305
>gnl|CDD|213618 TIGR01424, gluta_reduc_2, glutathione-disulfide reductase, plant.
The tripeptide glutathione is an important reductant,
e.g., for maintaining the cellular thiol/disulfide
status and for protecting against reactive oxygen
species such as hydrogen peroxide.
Glutathione-disulfide reductase regenerates reduced
glutathione from oxidized glutathione (glutathione
disulfide) + NADPH. This model represents one of two
closely related subfamilies of glutathione-disulfide
reductase. Both are closely related to trypanothione
reductase, and separate models are built so each of the
three can describe proteins with conserved function.
This model describes glutathione-disulfide reductases
of plants and some bacteria, including cyanobacteria
[Energy metabolism, Electron transport].
Length = 446
Score = 28.2 bits (63), Expect = 5.7
Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 54 EYDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
+YD +IG G GG V A RL+ KV + E
Sbjct: 2 DYDLFVIGAGSGG-VRAARLAAALGAKVAIAE 32
>gnl|CDD|183787 PRK12844, PRK12844, 3-ketosteroid-delta-1-dehydrogenase;
Reviewed.
Length = 557
Score = 28.2 bits (63), Expect = 5.9
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 54 EYDFVIIGGGVGGSVVA 70
YD V++G G GG A
Sbjct: 6 TYDVVVVGSGGGGMCAA 22
>gnl|CDD|107298 cd06303, PBP1_LuxPQ_Quorum_Sensing, Periplasmic binding protein
(LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from
Vibrio harveyi and its close homologs. Periplasmic
binding protein (LuxP) of autoinducer-2 (AI-2) receptor
LuxPQ from Vibrio harveyi and its close homologs from
other bacteria. The members of this group are highly
homologous to a family of periplasmic pentose/hexose
sugar-binding proteins that function as the primary
receptors for chemotaxis and transport of many sugar
based solutes in bacteria and archaea, and that are
members of the type I periplasmic binding protein
superfamily. The Vibrio harveyi AI-2 receptor consists
of two polypeptides, LuxP and LuxQ: LuxP is a
periplasmic binding protein that binds AI-2 by clamping
it between two domains, LuxQ is an integral membrane
protein belonging to the two-component sensor kinase
family. Unlike AI-2 bound to the LsrB receptor in
Salmonella typhimurium, the Vibrio harveyi AI-2
signaling molecule has an unusual furanosyl borate
diester. Hence, many bacteria coordinate their gene
expression according to the local density of their
population by producing species specific AI-2. This
process of quorum sensing allows LuxPQ to control light
production as well as its motility behavior.
Length = 280
Score = 27.7 bits (62), Expect = 6.3
Identities = 13/71 (18%), Positives = 29/71 (40%), Gaps = 7/71 (9%)
Query: 32 YLRQQGLEFRENIFLGNKPILSEYDFVIIGGGVGG-SVVANRLSENPKWKVLLLESGEDE 90
+ + G++ R N+ + S+ D++I + R+ + K K++L +
Sbjct: 38 FSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERVLASGKTKIIL------Q 91
Query: 91 NIYTNIPLLAH 101
NI T +
Sbjct: 92 NITTPVKAWLK 102
>gnl|CDD|235241 PRK04176, PRK04176, ribulose-1,5-biphosphate synthetase;
Provisional.
Length = 257
Score = 27.9 bits (63), Expect = 6.4
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 53 SEYDFVIIGGGVGGSVVANRLSENPKWKVLLLE 85
E D I+G G G A L++ KV + E
Sbjct: 24 LEVDVAIVGAGPSGLTAAYYLAKAGL-KVAVFE 55
>gnl|CDD|215308 PLN02568, PLN02568, polyamine oxidase.
Length = 539
Score = 27.9 bits (62), Expect = 6.5
Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 4/34 (11%)
Query: 58 VIIGGGVGGSVVANRL----SENPKWKVLLLESG 87
VIIG G+ G AN+L + N +++ ++E G
Sbjct: 9 VIIGAGMAGLTAANKLYTSSAANDMFELTVVEGG 42
>gnl|CDD|239378 cd03080, GST_N_Metaxin_like, GST_N family, Metaxin subfamily,
Metaxin-like proteins; a heterogenous group of proteins,
predominantly uncharacterized, with similarity to
metaxins and GSTs. Metaxin 1 is a component of a
preprotein import complex of the mitochondrial outer
membrane. It extends to the cytosol and is anchored to
the mitochondrial membrane through its C-terminal
domain. In mice, metaxin is required for embryonic
development. In humans, alterations in the metaxin gene
may be associated with Gaucher disease. One
characterized member of this subgroup is a novel GST
from Rhodococcus with toluene o-monooxygenase and
gamma-glutamylcysteine synthetase activities. Also
members are the cadmium-inducible lysosomal protein
CDR-1 and its homologs from C. elegans, and the failed
axon connections (fax) protein from Drosophila. CDR-1 is
an integral membrane protein that functions to protect
against cadmium toxicity and may also have a role in
osmoregulation to maintain salt balance in C. elegans.
The fax gene of Drosophila was identified as a genetic
modifier of Abelson (Abl) tyrosine kinase. The fax
protein is localized in cellular membranes and is
expressed in embryonic mesoderm and axons of the central
nervous system.
Length = 75
Score = 26.0 bits (58), Expect = 7.0
Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 5/39 (12%)
Query: 200 LKVTNIPYQNLLTEKFTQAKEGPLKVTNIPYQNLLTEKF 238
L++ IPY+N ++ +G L P+ L EK
Sbjct: 27 LRMAGIPYENKFGGLAKRSPKGKL-----PFIELNGEKI 60
>gnl|CDD|237365 PRK13369, PRK13369, glycerol-3-phosphate dehydrogenase;
Provisional.
Length = 502
Score = 28.0 bits (63), Expect = 7.0
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 55 YDFVIIGGGVGGSVVANRLSENPKWKVLLLESG 87
YD +IGGG+ G+ +A R + KVLL E
Sbjct: 7 YDLFVIGGGINGAGIA-RDAAGRGLKVLLCEKD 38
>gnl|CDD|201804 pfam01454, MAGE, MAGE family. The MAGE (melanoma antigen-encoding
gene) family are expressed in a wide variety of tumours
but not in normal cells, with the exception of the male
germ cells, placenta, and, possibly, cells of the
developing embryo. The cellular function of this family
is unknown. This family also contains the yeast protein,
Nse3. The Nse3 protein is part of the Smc5-6 complex.
Nse3 has been demonstrated to be important for meiosis.
Length = 171
Score = 27.1 bits (61), Expect = 7.1
Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 1/50 (2%)
Query: 10 LIVLICHVHWTHNILLESVYQKYLRQQGL-EFRENIFLGNKPILSEYDFV 58
L+V++ + N E ++L + GL ++ G+ L D V
Sbjct: 87 LMVILGVIFMKGNCASEEELWEFLNRLGLYPGEKHFIFGDPRKLITEDLV 136
>gnl|CDD|224172 COG1252, Ndh, NADH dehydrogenase, FAD-containing subunit [Energy
production and conversion].
Length = 405
Score = 27.6 bits (62), Expect = 8.0
Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 58 VIIGGGVGGSVVANRLSENP-KWKVLLLE 85
VI+GGG GG A RL+ ++ L++
Sbjct: 7 VILGGGFGGLSAAKRLARKLPDVEITLVD 35
>gnl|CDD|107297 cd06302, PBP1_LsrB_Quorum_Sensing, Periplasmic binding domain of
autoinducer-2 (AI-2) receptor LsrB from Salmonella
typhimurium and its close homologs. Periplasmic binding
domain of autoinducer-2 (AI-2) receptor LsrB from
Salmonella typhimurium and its close homologs from other
bacteria. The members of this group are homologous to a
family of periplasmic pentose/hexose sugar-binding
proteins that function as the primary receptors for
chemotaxis and transporters of many sugar based solutes
in bacteria and archaea and that are a member of the
type I periplasmic binding protein superfamily. LsrB
binds a chemically distinct form of the AI-2 signal that
lacks boron, in contrast to the Vibrio harveyi AI-2
signaling molecule that has an unusual furanosyl borate
diester. Hence, many bacteria coordinate their gene
expression according to the local density of their
population by producing species specific AI-2. This
process of quorum sensing allows LsrB to function as a
periplasmic AI-2 binding protein in interspecies
signaling.
Length = 298
Score = 27.6 bits (62), Expect = 8.3
Identities = 17/36 (47%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 224 KVTNIPYQNLLTEKFTQAACELGYRIYDYTGIEPAT 259
KVT IPY N + E +AA ELG Y G P T
Sbjct: 7 KVTGIPYFNRMEEGAKEAAKELGVDAI-YVG--PTT 39
>gnl|CDD|224153 COG1232, HemY, Protoporphyrinogen oxidase [Coenzyme metabolism].
Length = 444
Score = 27.7 bits (62), Expect = 9.0
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 57 FVIIGGGVGGSVVANRLSE-NPKWKVLLLESGED 89
IIGGG+ G A RL + P +V L E+ +
Sbjct: 3 IAIIGGGIAGLSAAYRLQKAGPDVEVTLFEADDR 36
>gnl|CDD|223643 COG0569, TrkA, K+ transport systems, NAD-binding component
[Inorganic ion transport and metabolism].
Length = 225
Score = 27.2 bits (61), Expect = 9.2
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 56 DFVIIGGGVGGSVVANRLSEN 76
+IIG G G VA LSE
Sbjct: 2 KIIIIGAGRVGRSVARELSEE 22
>gnl|CDD|236001 PRK07364, PRK07364, 2-octaprenyl-6-methoxyphenyl hydroxylase;
Validated.
Length = 415
Score = 27.3 bits (61), Expect = 9.9
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 54 EYDFVIIGGGVGGSVVA 70
YD I+GGG+ G +A
Sbjct: 18 TYDVAIVGGGIVGLTLA 34
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
0.317 0.136 0.411
Gapped
Lambda K H
0.267 0.0784 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,131,877
Number of extensions: 1326718
Number of successful extensions: 1416
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1395
Number of HSP's successfully gapped: 97
Length of query: 284
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 188
Effective length of database: 6,679,618
Effective search space: 1255768184
Effective search space used: 1255768184
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.0 bits)