RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10417
(385 letters)
>gnl|CDD|235000 PRK02106, PRK02106, choline dehydrogenase; Validated.
Length = 560
Score = 277 bits (712), Expect = 1e-88
Identities = 129/340 (37%), Positives = 186/340 (54%), Gaps = 53/340 (15%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDEDRIFTDLV----LISHYYQFTPYN 78
EYD+II+GAG GCV+A+RLSE P VLL+EAG D + + ++ Q YN
Sbjct: 5 EYDYIIIGAGSAGCVLANRLSEDPDVSVLLLEAGGPDYRWDFFIQMPAALAFPLQGKRYN 64
Query: 79 WGFKTTPQKNACLGLPNNQCLWPQGKGVGGSTIINGNIFTRGFPNDFNEWESL-GNTGWS 137
W ++T P+ + + N + P+GK +GGS+ ING ++ RG D++ W L G GWS
Sbjct: 65 WAYETEPEPH----MNNRRMECPRGKVLGGSSSINGMVYIRGNAMDYDNWAELPGLEGWS 120
Query: 138 FDDVLKYFKKFERINIPELNSDTVYHNTNGLLNVEYSPYKSKLSDIFLKVGLFNSDTVYH 197
+ D L YFKK E + E D Y +G L+V
Sbjct: 121 YADCLPYFKKAETRDGGE---DD-YRGGDGPLSV-------------------------- 150
Query: 198 NTNGLLNVEYSPYKSKLSDIFLKSSKELGY--TNIDYNNPNTKIGFSIVQSTIKNGRRMT 255
T G P + L F+++ + GY T+ D N + GF + T+ NGRR +
Sbjct: 151 -TRG------KPGTNPLFQAFVEAGVQAGYPRTD-DLNGYQQE-GFGPMDRTVTNGRRWS 201
Query: 256 ASKAYLKPIIDRTNLHVIKNSRVVKIIIDPISKQAKGVELVKNGHKRSVFARKEVIVSSG 315
A++AYL P + R NL ++ ++ +I+ + K+A GVE + G + + AR+EVI+S+G
Sbjct: 202 AARAYLDPALKRPNLTIVTHALTDRILFE--GKRAVGVEYERGGGRETARARREVILSAG 259
Query: 316 AFNSPKLLMLSGVGPREHLTELGIPVVQDLR-VGDNLMEH 354
A NSP+LL LSG+GP EHL ELGIPVV DL VG+NL +H
Sbjct: 260 AINSPQLLQLSGIGPAEHLKELGIPVVHDLPGVGENLQDH 299
>gnl|CDD|225186 COG2303, BetA, Choline dehydrogenase and related flavoproteins
[Amino acid transport and metabolism].
Length = 542
Score = 261 bits (668), Expect = 2e-82
Identities = 122/363 (33%), Positives = 184/363 (50%), Gaps = 48/363 (13%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDEDRIFTDLVLISHY--YQFTPYNWG 80
EYD++IVG+G G V+A RLS+ VL++EAG DR + ++ Y+WG
Sbjct: 7 EYDYVIVGSGSAGSVLAARLSD-AGLSVLVLEAGGPDRRPLIQMPAAYAFLMNGPRYDWG 65
Query: 81 FKTTPQKNACLGLPNNQCLWPQGKGVGGSTIINGNIFTRGFPNDFNEWESL-GNTGWSFD 139
F+T P+ L + WP+GK +GGS+ ING ++ RG P DF+ W G GW +D
Sbjct: 66 FRTEPEP----HLRGRELAWPRGKVLGGSSSINGMVYVRGHPEDFDAWAQESGAPGWPYD 121
Query: 140 DVLKYFKKFERINIPELNSDTVYHNTNGLLNVEYSPYKSKLSDIFLKVGLFNSDTVYHNT 199
DVL YFK+ E L VG + T +H
Sbjct: 122 DVLPYFKRAED---------------------------------LLGVGGQDLRT-WHGG 147
Query: 200 NGLLNVEYSPYKSKLSDIFLKSSKELGYTNIDYNNPNTKIGFSIVQSTIKNGRRMTASKA 259
G L V + ++ F+++ ++LG+ N + GF TI NGRR +A++A
Sbjct: 148 GGPLPVSPPRSPNPIARAFIEAGEQLGFPTTPDPNGADQEGFGPYCVTICNGRRWSAARA 207
Query: 260 YLKPIIDRTNLHVIKNSRVVKIIIDPISKQAKGVELVKN--GHKRSVFARKEVIVSSGAF 317
YLKP + R NL ++ +RV +I+++ +A GVE+ G + A +EV++++GA
Sbjct: 208 YLKPALKRPNLTLLTGARVRRILLEG--DRAVGVEVEIGDGGTIETAVAAREVVLAAGAI 265
Query: 318 NSPKLLMLSGVGPREHLTELGIPVVQDLR-VGDNLMEHVAYSALTFGINKTFSVVTKRLL 376
NSPKLL+LSG+GP +HL E GI VV L VG NL +H+ + F + + L
Sbjct: 266 NSPKLLLLSGIGPADHLLEHGIDVVGRLPGVGQNLQDHLEI-YVAFEATEPTNDSVLSLF 324
Query: 377 RQP 379
+
Sbjct: 325 SKL 327
>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 = 225 bits (575), Expect = 9e-69
Identities = 115/337 (34%), Positives = 166/337 (49%), Gaps = 50/337 (14%)
Query: 25 DFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDEDRIFTDLV----LISHYYQFTPYNWG 80
D+II+G G G V+A RLSE S VL++EAG D + L+ +++ YNW
Sbjct: 1 DYIIIGGGSAGSVLAGRLSEDVSNSVLVLEAGGSDYPWDLLIQMPAALAYPAGNKRYNWI 60
Query: 81 FKTTPQKNACLGLPNNQCLWPQGKGVGGSTIINGNIFTRGFPNDFNEW-ESLGNTGWSFD 139
++T P+ + + N + +GK +GGS+ ING I+ RG P D+ +W + G W +
Sbjct: 61 YETEPEPH----MNNRRVGHARGKVLGGSSSINGMIYQRGNPMDYEKWAKPEGMESWDYA 116
Query: 140 DVLKYFKKFERINIPELNSDTVYHNTNGLLNVEYSPYKSKLSDIFLKVGLFNSDTVYHNT 199
D L Y+K+ E F + Y
Sbjct: 117 DCLPYYKRLETT--------------------------------------FGGEKPYRGH 138
Query: 200 NGLLNVEYSPYKSKLSDIFLKSSKELGYTNIDYNNPNTKIGFSIVQSTIKNGRRMTASKA 259
+G + V P + L F+++ E GY N + GF + ST+ NGRR++A++A
Sbjct: 139 DGPIKVRRGPADNPLFQAFIEAGVEAGYNKTPDVNGFRQEGFGPMDSTVHNGRRVSAARA 198
Query: 260 YLKPIIDRTNLHVIKNSRVVKIIIDPISKQAKGVELVKNGHKRSVFARKEVIVSSGAFNS 319
YL P + R NL V + V KI + +A GVE K G K A KEVI+S+GA NS
Sbjct: 199 YLHPAMKRPNLEVQTRAFVTKINFE--GNRATGVEFKKGGRKEHTEANKEVILSAGAINS 256
Query: 320 PKLLMLSGVGPREHLTELGIPVVQDLR-VGDNLMEHV 355
P+LL LSG+G EHL ELGI L VG+NL +H+
Sbjct: 257 PQLLQLSGIGDAEHLRELGIEPRIHLPGVGENLQDHL 293
>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 = 185 bits (471), Expect = 5e-54
Identities = 104/339 (30%), Positives = 156/339 (46%), Gaps = 58/339 (17%)
Query: 25 DFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDEDRIFTDL-VLISHYYQF-----TPYN 78
D ++VG G GCVVA RLSE PS V ++EAG R + L ++ + +P
Sbjct: 2 DVLVVGGGSAGCVVAARLSEDPSCTVTVLEAGPGYRDPSRLPAQLTDGLRLPIGPASPVV 61
Query: 79 WGFKTTPQKNACLGLPNNQCLWPQGKGVGGSTIINGNIFTRGFPNDFNEWESLGNTGWSF 138
W + P +G+ +GGS +NG F R P DF+ W GWS+
Sbjct: 62 WRYGVELTDG-----PRRASAIVRGRVLGGSGAVNGGYFCRALPADFDAW---PIPGWSW 113
Query: 139 DDVLKYFKKFERINIPELNSDTVYHNTNGLLNVEYSPYKSKLSDIFLKVGLFNSDTVYHN 198
DDVL +F+ E +L+ D H T G + V +
Sbjct: 114 DDVLPHFRAIET----DLDFDGPLHGTAGPIPVRRTA----------------------- 146
Query: 199 TNGLLNVEYSPYKSKLSDIFLKSSKELGYTNIDYNN---PNTKIGFSIVQSTIKNGRRMT 255
E +S F+ ++ G+ I N P+ G V + GRR++
Sbjct: 147 -------ELDG----ISAAFVAAALGAGFGWIADLNGSGPDAPTGVGAVPLNVDGGRRVS 195
Query: 256 ASKAYLKPIIDRTNLHVIKNSRVVKIIIDPISKQAKGVELVKNGHKRSVFARKEVIVSSG 315
+ AYL P + R NL V ++RVV+I+ +A GVE++ +G R++ A + V++ +G
Sbjct: 196 TAVAYLLPALKRPNLTVEADTRVVRILFS--GTRAVGVEVLGDGGPRTLRADR-VVLCAG 252
Query: 316 AFNSPKLLMLSGVGPREHLTELGIPVVQDLRVGDNLMEH 354
A S LL+LSG+GP E L GI VV DL VG + ++H
Sbjct: 253 AVESAHLLLLSGIGPAEQLRAAGIAVVLDLPVGSDFVDH 291
>gnl|CDD|216089 pfam00732, GMC_oxred_N, GMC oxidoreductase. This family of
proteins bind FAD as a cofactor.
Length = 218
Score = 135 bits (343), Expect = 5e-38
Identities = 72/273 (26%), Positives = 107/273 (39%), Gaps = 72/273 (26%)
Query: 91 LGLPNNQ-CLWPQGKGVGGSTIINGNIFTRGFPNDFNEWESL-GNTGWSFDDVLKYFKKF 148
G N + + P G VGG + +N + R +EW S G GW +DD L Y K
Sbjct: 11 AGSVNGRRMILPAGSTVGGGSSVNWSACIRTPAAVLDEWASEFGLEGWGYDDYLPYMDKV 70
Query: 149 ERINIPELNSDTVYHNTNGLLNVEYSPYKSKLSDIFLKVGLFNSDTVYHNTNGLLNVEYS 208
E G L V
Sbjct: 71 E-----------------GPLGVTTKG--------------------------------- 80
Query: 209 PYKSKLSDIFLKSSKELGY--TNIDYNNP-NTKIGFSIVQSTIKNGRRMTASKAYLKPII 265
+S L+ LK+++ELGY + N+ GF + G + + ++ +L+P +
Sbjct: 81 IEESPLNQALLKAAEELGYPVEAVPRNSNGCHYCGFCGLGC--PTGAKQSTARTWLRPAL 138
Query: 266 DRTNLHVIKNSRVVKIIIDPISKQAKGVE--LVKNGHKRSVFARKEVIVSSGAFNSPKLL 323
+R NL ++ ++ KIII +A GVE G KR + A KEV+V++GA N+P LL
Sbjct: 139 ER-NLRILTGAKAEKIIILGRGGRAVGVEARDGGGGIKRLITAAKEVVVAAGALNTPPLL 197
Query: 324 MLSGVGPREHLTELGIPVVQDLRVGDNLMEHVA 356
+ SG+G H VG NL H
Sbjct: 198 LRSGLGKNPH------------PVGKNLQLHPV 218
>gnl|CDD|215420 PLN02785, PLN02785, Protein HOTHEAD.
Length = 587
Score = 86.8 bits (215), Expect = 2e-18
Identities = 84/330 (25%), Positives = 142/330 (43%), Gaps = 82/330 (24%)
Query: 24 YDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDEDRIFTDLVLISHYYQFTPYNWGFKT 83
YD+I+VG G GC +A LS+ ++ VLL+E G F + +S F + G
Sbjct: 56 YDYIVVGGGTAGCPLAATLSQ--NFSVLLLERGGVP--FGN-ANVSFLENF---HIGLAD 107
Query: 84 TPQKNACLG-LPNNQCLWPQGKGVGGSTIINGNIFTRGFPNDFNEWESLGNTGWSFDDVL 142
T +A + + + + + +GG T IN ++R + GW V
Sbjct: 108 TSPTSASQAFISTDGVINARARVLGGGTCINAGFYSRASTRFIQK------AGWDAKLVN 161
Query: 143 KYFKKFER--INIPELNSDTVYHNTNGLLNVEYSPYKSKLSDIFLKVGLFNSDTVYHNTN 200
+ + ER ++ P++ +P+++ L D
Sbjct: 162 ESYPWVERQIVHWPKV-----------------APWQAALRD------------------ 186
Query: 201 GLLNVEYSPYKSKLSDIFLKSSKELGYTNIDYNN-PNTKIGFSIVQSTIKNGRRMTASKA 259
LL V SP+ G+T Y++ TK+G +I GRR TA A
Sbjct: 187 SLLEVGVSPFN--------------GFT---YDHVYGTKVGGTIFDEF---GRRHTA--A 224
Query: 260 YLKPIIDRTNLHVIKNSRVVKIIIDPISKQAKGVELV---KNGHKRSVF----ARKEVIV 312
L + L V+ ++ V KI+ D K+ + ++ +NG++ F E+I+
Sbjct: 225 ELLAAGNPNKLRVLLHATVQKIVFDTSGKRPRATGVIFKDENGNQHQAFLSNNKGSEIIL 284
Query: 313 SSGAFNSPKLLMLSGVGPREHLTELGIPVV 342
S+GA SP++L+LSG+GP++ L + IPVV
Sbjct: 285 SAGAIGSPQMLLLSGIGPKKELKKHKIPVV 314
>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 = 42.7 bits (101), Expect = 1e-04
Identities = 11/33 (33%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 25 DFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGD 57
D +++G G+ G A+ L+ V L+E GD
Sbjct: 1 DVVVIGGGIVGLSTAYELAR-RGLSVTLLERGD 32
>gnl|CDD|223717 COG0644, FixC, Dehydrogenases (flavoproteins) [Energy production
and conversion].
Length = 396
Score = 42.8 bits (101), Expect = 2e-04
Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 22 DEYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDEDR 60
EYD +IVGAG G A RL++ VL++E G E
Sbjct: 2 MEYDVVIVGAGPAGSSAARRLAKA-GLDVLVLEKGSEPG 39
>gnl|CDD|223652 COG0579, COG0579, Predicted dehydrogenase [General function
prediction only].
Length = 429
Score = 42.6 bits (101), Expect = 2e-04
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 22 DEYDFIIVGAGVGGCVVAHRLSEV-PSWKVLLIE 54
+YD +I+G G+ G A+ LSE P V L+E
Sbjct: 2 MDYDVVIIGGGIMGAATAYELSEYEPDLSVALLE 35
>gnl|CDD|205628 pfam13450, NAD_binding_8, NAD(P)-binding Rossmann-like domain.
Length = 66
Score = 37.5 bits (88), Expect = 6e-04
Identities = 13/30 (43%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 28 IVGAGVGGCVVAHRLSEVPSWKVLLIEAGD 57
IVGAG+ G V A+ L++ VL++E D
Sbjct: 1 IVGAGLSGLVAAYLLAKR-GKDVLVLEKRD 29
>gnl|CDD|222355 pfam13738, Pyr_redox_3, Pyridine nucleotide-disulphide
oxidoreductase.
Length = 202
Score = 40.4 bits (95), Expect = 6e-04
Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 7/69 (10%)
Query: 259 AYLKPIIDRTNLHVIKNSRVVKIIIDPISKQAKGVELVKNGHKRSVFARKEVIVSSGAFN 318
AYL+ + R L + ++RV + D G +V+ +V A V+ ++GAF+
Sbjct: 86 AYLEDLARRYGLPIRLSTRVTAVERD------GGRFVVRLTDGETVRADY-VVDATGAFS 138
Query: 319 SPKLLMLSG 327
PK G
Sbjct: 139 VPKPPGFPG 147
>gnl|CDD|223737 COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino
acid transport and metabolism].
Length = 387
Score = 41.0 bits (96), Expect = 8e-04
Identities = 12/35 (34%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGD 57
+ D +I+G G+ G A+ L+E V ++EAG+
Sbjct: 4 KMDVVIIGGGIVGLSAAYYLAERG-ADVTVLEAGE 37
>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 = 40.4 bits (95), Expect = 0.001
Identities = 17/35 (48%), Positives = 24/35 (68%), Gaps = 1/35 (2%)
Query: 25 DFIIVGAGVGGCVVAHRLSE-VPSWKVLLIEAGDE 58
D +IVGAG+ G ++A RL + P +VLLI+AG
Sbjct: 1 DLVIVGAGLAGLLLALRLRQARPGLRVLLIDAGPG 35
>gnl|CDD|240384 PTZ00367, PTZ00367, squalene epoxidase; Provisional.
Length = 567
Score = 39.8 bits (93), Expect = 0.002
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 11 EEFLYGNKRLLDEYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIE---AGDEDRIFTDL 65
+ R +YD IIVG + G V+A LS+ KVL++E DRI +L
Sbjct: 21 SRLRFKPARTNYDYDVIIVGGSIAGPVLAKALSKQGR-KVLMLERDLFSKPDRIVGEL 77
>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 = 37.9 bits (88), Expect = 0.006
Identities = 15/33 (45%), Positives = 22/33 (66%), Gaps = 1/33 (3%)
Query: 25 DFIIVGAGVGGCVVAHRLSEV-PSWKVLLIEAG 56
D IIVG G+ G ++A RL P +++ +IEAG
Sbjct: 1 DCIIVGGGLAGGLIALRLQRARPDFRIRVIEAG 33
>gnl|CDD|235787 PRK06370, PRK06370, mercuric reductase; Validated.
Length = 463
Score = 37.1 bits (87), Expect = 0.013
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 22 DEYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIE 54
YD I++GAG G +A R + + KV LIE
Sbjct: 4 QRYDAIVIGAGQAGPPLAARAAGL-GMKVALIE 35
>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 = 37.1 bits (87), Expect = 0.014
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 25 DFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDE 58
D I+G G+ G +A L+ W+V L EA +
Sbjct: 262 DAAIIGGGIAGAALALALAR-RGWQVTLYEADEA 294
>gnl|CDD|182194 PRK10015, PRK10015, oxidoreductase; Provisional.
Length = 429
Score = 36.1 bits (83), Expect = 0.027
Identities = 17/36 (47%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 22 DEYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGD 57
D++D I+VGAGV G V A ++ VL+IE GD
Sbjct: 4 DKFDAIVVGAGVAGSVAALVMARA-GLDVLVIERGD 38
>gnl|CDD|223727 COG0654, UbiH, 2-polyprenyl-6-methoxyphenol hydroxylase and
related FAD-dependent oxidoreductases [Coenzyme
metabolism / Energy production and conversion].
Length = 387
Score = 35.8 bits (83), Expect = 0.029
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 22 DEYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEA 55
D IVGAG G +A L+ V L+E
Sbjct: 1 KMLDVAIVGAGPAGLALALALARAG-LDVTLLER 33
>gnl|CDD|235774 PRK06292, PRK06292, dihydrolipoamide dehydrogenase; Validated.
Length = 460
Score = 35.9 bits (84), Expect = 0.035
Identities = 16/35 (45%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 22 DEYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAG 56
++YD I++GAG G V A R ++ KV LIE G
Sbjct: 2 EKYDVIVIGAGPAGYVAARRAAK-LGKKVALIEKG 35
>gnl|CDD|237225 PRK12843, PRK12843, putative FAD-binding dehydrogenase; Reviewed.
Length = 578
Score = 35.9 bits (83), Expect = 0.035
Identities = 18/82 (21%), Positives = 36/82 (43%), Gaps = 12/82 (14%)
Query: 253 RMTASKAYLKPIIDRTNLHVIKNSRVVKIIIDPISKQAKGVELVKNGHKRSVFARKEVIV 312
R+ S + + ++ + V + D + G +V+ G +R + AR V++
Sbjct: 226 RLLYS-------LRARGVRILTQTDVESLETD--HGRVIGATVVQGGVRRRIRARGGVVL 276
Query: 313 SSGAFN-SPKLL--MLSGVGPR 331
++G FN P+L +L R
Sbjct: 277 ATGGFNRHPQLRRELLPAAVAR 298
>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 = 35.4 bits (82), Expect = 0.035
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 24 YDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDEDRI 61
YD ++VGAG G A+RL++ +VLL+E R
Sbjct: 1 YDVVVVGAGPAGASAAYRLAD-KGLRVLLLEKKSFPRY 37
>gnl|CDD|235798 PRK06416, PRK06416, dihydrolipoamide dehydrogenase; Reviewed.
Length = 462
Score = 35.5 bits (83), Expect = 0.039
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGD 57
EYD I++GAG GG V A R +++ KV ++E
Sbjct: 4 EYDVIVIGAGPGGYVAAIRAAQL-GLKVAIVEKEK 37
>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 = 35.5 bits (82), Expect = 0.045
Identities = 12/57 (21%), Positives = 19/57 (33%), Gaps = 15/57 (26%)
Query: 25 DFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDEDRIFTDLVLISHYYQFTPYNWGF 81
D ++G G G +A L+ P +V LIE + +G
Sbjct: 1 DLAVIGGGPAGLAIALELAR-PGLRVQLIEPHP-PIPG-------------NHTYGV 42
>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 = 35.1 bits (81), Expect = 0.046
Identities = 14/31 (45%), Positives = 25/31 (80%), Gaps = 1/31 (3%)
Query: 24 YDFIIVGAGVGGCVVAHRLSEVPSWKVLLIE 54
+D+IIVGAG+ G V+A+ L+++ +VL++E
Sbjct: 2 FDYIIVGAGLSGIVLANILAQLNK-RVLVVE 31
>gnl|CDD|215314 PLN02576, PLN02576, protoporphyrinogen oxidase.
Length = 496
Score = 34.6 bits (80), Expect = 0.075
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDEDRI 61
D +VGAGV G A+ L+ VL+ EA DR+
Sbjct: 12 SKDVAVVGAGVSGLAAAYALASKHGVNVLVTEA--RDRV 48
>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 = 34.5 bits (80), Expect = 0.077
Identities = 14/33 (42%), Positives = 17/33 (51%)
Query: 25 DFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGD 57
D +IVG G G +A L+ KV LIEA
Sbjct: 1 DIVIVGGGPVGLALALALARSGGLKVALIEATP 33
>gnl|CDD|223636 COG0562, Glf, UDP-galactopyranose mutase [Cell envelope
biogenesis, outer membrane].
Length = 374
Score = 34.6 bits (80), Expect = 0.083
Identities = 12/32 (37%), Positives = 23/32 (71%), Gaps = 1/32 (3%)
Query: 24 YDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEA 55
+D++IVGAG+ G V+A +++ +VL++E
Sbjct: 2 FDYLIVGAGLSGAVIAEVAAQL-GKRVLIVEK 32
>gnl|CDD|178267 PLN02661, PLN02661, Putative thiazole synthesis.
Length = 357
Score = 34.4 bits (79), Expect = 0.084
Identities = 15/32 (46%), Positives = 21/32 (65%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIE 54
+ D +IVGAG G A+ LS+ P+ KV +IE
Sbjct: 92 DTDVVIVGAGSAGLSCAYELSKNPNVKVAIIE 123
>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 = 0.11
Identities = 15/36 (41%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDE 58
EYD +++GAG G V A R +++ KV L+E G+
Sbjct: 4 EYDVVVIGAGPAGYVAAIRAAQLG-LKVALVEKGER 38
>gnl|CDD|215308 PLN02568, PLN02568, polyamine oxidase.
Length = 539
Score = 34.4 bits (79), Expect = 0.11
Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 6/43 (13%)
Query: 27 IIVGAGVGGCVVAHRLSEVPS----WKVLLIEAGDE--DRIFT 63
+I+GAG+ G A++L + +++ ++E GD RI T
Sbjct: 9 VIIGAGMAGLTAANKLYTSSAANDMFELTVVEGGDRIGGRINT 51
>gnl|CDD|183292 PRK11728, PRK11728, hydroxyglutarate oxidase; Provisional.
Length = 393
Score = 34.0 bits (79), Expect = 0.12
Identities = 12/32 (37%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 24 YDFIIVGAGVGGCVVAHRLSEV-PSWKVLLIE 54
YDF+I+G G+ G A +L E P ++ ++E
Sbjct: 3 YDFVIIGGGIVGLSTAMQLQERYPGARIAVLE 34
>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 = 32.7 bits (75), Expect = 0.24
Identities = 13/31 (41%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 25 DFIIVGAGVGGCVVAHRLSEVPSWKVLLIEA 55
D +I+G G G A RL+ KV LIE
Sbjct: 1 DVVIIGGGPAGLAAAIRLAR-LGLKVALIER 30
>gnl|CDD|224983 COG2072, TrkA, Predicted flavoprotein involved in K+ transport
[Inorganic ion transport and metabolism].
Length = 443
Score = 32.8 bits (75), Expect = 0.28
Identities = 16/66 (24%), Positives = 23/66 (34%), Gaps = 12/66 (18%)
Query: 24 YDFIIVGAGVGGCVVAHRLSE--VPSWKVLLIEAGDE-----DRIFTD-LVLIS--HYYQ 73
D I+GAG G A+ L + VP ++ E D+ L L S
Sbjct: 9 TDVAIIGAGQSGLAAAYALKQAGVP--DFVIFEKRDDVGGTWRYNRYPGLRLDSPKWLLG 66
Query: 74 FTPYNW 79
F +
Sbjct: 67 FPFLPF 72
>gnl|CDD|233583 TIGR01813, flavo_cyto_c, flavocytochrome c. This model describes a
family of redox proteins related to the succinate
dehydrogenases and fumarate reductases of E. coli,
mitochondria, and other well-characterized systems. A
member of this family from Shewanella frigidimarina
NCIMB400 is characterized as a water-soluble periplasmic
protein with four heme groups, a non-covalently bound
FAD, and essentially unidirectional fumarate reductase
activity. At least seven distinct members of this family
are found in Shewanella oneidensis, a species able to
use a wide variety of pathways for respiraton [Energy
metabolism, Electron transport].
Length = 439
Score = 32.7 bits (75), Expect = 0.31
Identities = 22/84 (26%), Positives = 32/84 (38%), Gaps = 15/84 (17%)
Query: 238 KIGFSIVQSTIKNGRRMTASKAYLKPIIDRTNLHVIKNSRVVKIIIDPISKQAKGVELVK 297
G IVQ K ++ I R N S+V +I D GV +
Sbjct: 127 ASGAEIVQKLYKKAKKEG--------IDTRLN------SKVEDLIQDD-QGTVVGVVVKG 171
Query: 298 NGHKRSVFARKEVIVSSGAFNSPK 321
G + A K V++++G F S K
Sbjct: 172 KGKGIYIKAAKAVVLATGGFGSNK 195
>gnl|CDD|224152 COG1231, COG1231, Monoamine oxidase [Amino acid transport and
metabolism].
Length = 450
Score = 32.8 bits (75), Expect = 0.32
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 25 DFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGD 57
D IIVGAG+ G A+ L + ++V ++EA D
Sbjct: 9 DVIIVGAGLAGLSAAYELKKA-GYQVQILEARD 40
>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 = 32.7 bits (75), Expect = 0.36
Identities = 10/36 (27%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 25 DFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDEDR 60
D +++G+G+ G A +E KV ++E G
Sbjct: 1 DVVVIGSGLAGLAAALEAAEAGL-KVAVVEKGQPFG 35
Score = 29.6 bits (67), Expect = 2.8
Identities = 17/72 (23%), Positives = 35/72 (48%), Gaps = 7/72 (9%)
Query: 293 VELVKNGHKRSVFARKEVIVSSGAF-NSPKLLMLSG-----VGPREHL-TELGIPVVQDL 345
VE +NG + + A V++++G F + +LL+ + GP + + + +
Sbjct: 178 VENRRNGREVRIRAIAGVLLATGGFGRNAELLLPAAGYADTTGPPANTGDGIALALRAGA 237
Query: 346 RVGDNLMEHVAY 357
+ D+LME V +
Sbjct: 238 ALTDDLMEFVQF 249
>gnl|CDD|217829 pfam03985, Paf1, Paf1. Members of this family are components of
the RNA polymerase II associated Paf1 complex. The Paf1
complex functions during the elongation phase of
transcription in conjunction with Spt4-Spt5 and
Spt16-Pob3i.
Length = 431
Score = 32.4 bits (74), Expect = 0.39
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 335 TELGIPVVQDLRVGDNLMEHVAYSALTFGINKTFSVVTKRLLRQPIKTGVK 385
+++G V Q+LR D ++ A I KTF V K +L+ P K VK
Sbjct: 136 SKVGRNVKQNLREEDEYLDR---EAQIEAIEKTFEDVKKEILKHPSKKNVK 183
>gnl|CDD|223651 COG0578, GlpA, Glycerol-3-phosphate dehydrogenase [Energy
production and conversion].
Length = 532
Score = 32.2 bits (74), Expect = 0.45
Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 22 DEYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGD 57
+E+D I++G G+ G +A + KV L+E GD
Sbjct: 11 EEFDVIVIGGGITGAGIARDAA-GRGLKVALVEKGD 45
>gnl|CDD|236223 PRK08294, PRK08294, phenol 2-monooxygenase; Provisional.
Length = 634
Score = 32.3 bits (74), Expect = 0.52
Identities = 14/36 (38%), Positives = 19/36 (52%)
Query: 19 RLLDEYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIE 54
L DE D +IVG G G +A +LS P ++E
Sbjct: 28 DLPDEVDVLIVGCGPAGLTLAAQLSAFPDITTRIVE 63
>gnl|CDD|233918 TIGR02546, III_secr_ATP, type III secretion apparatus
H+-transporting two-sector ATPase. [Protein fate,
Protein and peptide secretion and trafficking, Cellular
processes, Pathogenesis].
Length = 422
Score = 31.9 bits (73), Expect = 0.55
Identities = 28/128 (21%), Positives = 49/128 (38%), Gaps = 21/128 (16%)
Query: 276 SRVVKIIIDPISKQAKGVELVKNGHKRSVFARKEVI--VSSGAFNSPKLLMLSGVGPREH 333
+ V ++ + A+ EL + EV+ A SP L L G+ P
Sbjct: 10 TEVSGTLLKAVLPGARVGELCLIRRRDPSQLLAEVVGFTGDEALLSP-LGELHGISPGSE 68
Query: 334 LTELGIPVVQDLRVGDNLMEHV---------AYSALTFGINKTFSV-------VTKRLLR 377
+ G P +RVG+ L+ V L G +T + ++++ +
Sbjct: 69 VIPTGRP--LSIRVGEALLGRVLDGFGRPLDGKGELPAGEIETRPLDADPPPPMSRQPID 126
Query: 378 QPIKTGVK 385
QP+ TGV+
Sbjct: 127 QPLPTGVR 134
>gnl|CDD|177909 PLN02268, PLN02268, probable polyamine oxidase.
Length = 435
Score = 32.0 bits (73), Expect = 0.56
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 27 IIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDE--DRIFTD 64
I++G G+ G A L + S+KV L+E+ D R+ TD
Sbjct: 4 IVIGGGIAGIAAARALHDA-SFKVTLLESRDRIGGRVHTD 42
>gnl|CDD|224154 COG1233, COG1233, Phytoene dehydrogenase and related proteins
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 487
Score = 32.0 bits (73), Expect = 0.60
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGD 57
YD +++GAG+ G A L+ KV ++E D
Sbjct: 3 MYDVVVIGAGLNGLAAAALLARA-GLKVTVLEKND 36
>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 = 31.9 bits (73), Expect = 0.61
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 25 DFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDEDR 60
D IIVG G+ G +A LS + K+ LIEA
Sbjct: 1 DVIIVGGGLVGLSLALALSRLGKIKIALIEANSPSA 36
>gnl|CDD|182273 PRK10157, PRK10157, putative oxidoreductase FixC; Provisional.
Length = 428
Score = 31.4 bits (71), Expect = 0.86
Identities = 17/36 (47%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 22 DEYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGD 57
D +D IIVGAG+ G V A L+ + +VL+IE G+
Sbjct: 4 DIFDAIIVGAGLAGSVAALVLAREGA-QVLVIERGN 38
>gnl|CDD|183787 PRK12844, PRK12844, 3-ketosteroid-delta-1-dehydrogenase; Reviewed.
Length = 557
Score = 31.3 bits (71), Expect = 0.89
Identities = 16/84 (19%), Positives = 42/84 (50%), Gaps = 5/84 (5%)
Query: 237 TKIGFSIVQSTIKNGRRMT---ASKAYLKPIIDRTNLHVIKNSRVVKIIIDPISKQAKGV 293
++G + + I+ + +T A + + + N+ + ++I++ + GV
Sbjct: 187 ARVGARTLAARIRGQKLLTNGAALIGRMLEAALAAGVPLWTNTPLTELIVE--DGRVVGV 244
Query: 294 ELVKNGHKRSVFARKEVIVSSGAF 317
+V++G + + AR+ V+++SG F
Sbjct: 245 VVVRDGREVLIRARRGVLLASGGF 268
Score = 29.7 bits (67), Expect = 3.1
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 23 EYDFIIVGAGVGGCVVA 39
YD ++VG+G GG A
Sbjct: 6 TYDVVVVGSGGGGMCAA 22
>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 = 31.1 bits (71), Expect = 0.94
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIE 54
YD I++G G GG V A R +++ KV L+E
Sbjct: 1 AYDVIVIGGGPGGYVAAIRAAQL-GLKVALVE 31
>gnl|CDD|236001 PRK07364, PRK07364, 2-octaprenyl-6-methoxyphenyl hydroxylase;
Validated.
Length = 415
Score = 30.8 bits (70), Expect = 1.1
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 22 DEYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEA 55
YD IVG G+ G +A L + ++ LIEA
Sbjct: 17 LTYDVAIVGGGIVGLTLAAALKD-SGLRIALIEA 49
>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 = 31.0 bits (70), Expect = 1.2
Identities = 15/34 (44%), Positives = 22/34 (64%), Gaps = 1/34 (2%)
Query: 24 YDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGD 57
+D I+VGAG+ GC A+ L++ K LL+E D
Sbjct: 1 FDVIVVGAGIMGCFAAYHLAK-HGKKTLLLEQFD 33
>gnl|CDD|223981 COG1053, SdhA, Succinate dehydrogenase/fumarate reductase,
flavoprotein subunit [Energy production and
conversion].
Length = 562
Score = 30.8 bits (70), Expect = 1.3
Identities = 10/33 (30%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 22 DEYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIE 54
E+D +++G G G A +E KV L+
Sbjct: 5 HEFDVVVIGGGGAGLRAAIEAAEAGL-KVALLS 36
>gnl|CDD|235241 PRK04176, PRK04176, ribulose-1,5-biphosphate synthetase;
Provisional.
Length = 257
Score = 30.5 bits (70), Expect = 1.3
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 18 KRLLD--EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIE 54
++LLD E D IVGAG G A+ L++ KV + E
Sbjct: 18 EKLLDYLEVDVAIVGAGPSGLTAAYYLAK-AGLKVAVFE 55
>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 = 30.6 bits (69), Expect = 1.4
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEA 55
YD++++G G GG A R +E + K LL+EA
Sbjct: 2 HYDYLVIGGGSGGIASARRAAEHGA-KALLVEA 33
>gnl|CDD|181142 PRK07846, PRK07846, mycothione reductase; Reviewed.
Length = 451
Score = 30.3 bits (69), Expect = 1.6
Identities = 10/34 (29%), Positives = 18/34 (52%), Gaps = 3/34 (8%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAG 56
YD II+G G G ++ R + ++ ++E G
Sbjct: 1 HYDLIIIGTGSGNSILDERFA---DKRIAIVEKG 31
>gnl|CDD|226103 COG3573, COG3573, Predicted oxidoreductase [General function
prediction only].
Length = 552
Score = 30.6 bits (69), Expect = 1.8
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDEDRI 61
D I+VGAG+ G V A L++ +VL+++ E +
Sbjct: 5 TADVIVVGAGLAGLVAAAELADA-GKRVLILDQEGEQNL 42
>gnl|CDD|183782 PRK12834, PRK12834, putative FAD-binding dehydrogenase; Reviewed.
Length = 549
Score = 30.3 bits (69), Expect = 1.9
Identities = 13/32 (40%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIE 54
+ D I+VGAG+ G V A L++ +VLL++
Sbjct: 4 DADVIVVGAGLAGLVAAAELADA-GKRVLLLD 34
>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 = 30.1 bits (68), Expect = 1.9
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 24 YDFIIVGAGVGGCVVAHRLSEVP---SWKVLLIEAGD 57
+D +IVG G G +A L P KVLL++A D
Sbjct: 1 FDVVIVGGGPVGLALAAALGNNPLTKDLKVLLLDAVD 37
>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 = 30.2 bits (68), Expect = 2.0
Identities = 15/31 (48%), Positives = 23/31 (74%), Gaps = 1/31 (3%)
Query: 24 YDFIIVGAGVGGCVVAHRLSEVPSWKVLLIE 54
YD I++G+G+GG V A +L+ V KVL++E
Sbjct: 1 YDAIVIGSGIGGLVTATQLA-VKGAKVLVLE 30
>gnl|CDD|185420 PTZ00058, PTZ00058, glutathione reductase; Provisional.
Length = 561
Score = 30.4 bits (68), Expect = 2.1
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 24 YDFIIVGAGVGGCVVAHRLSEVPSWKVLLIE 54
YD I++G G GG A R + + KV L+E
Sbjct: 49 YDLIVIGGGSGGMAAARRAARNKA-KVALVE 78
>gnl|CDD|180854 PRK07121, PRK07121, hypothetical protein; Validated.
Length = 492
Score = 29.9 bits (68), Expect = 2.6
Identities = 15/65 (23%), Positives = 32/65 (49%), Gaps = 4/65 (6%)
Query: 256 ASKAYLKPIIDRT---NLHVIKNSRVVKIIIDPISKQAKGVELVKNGHKRSVFARKEVIV 312
+ P+ R + + ++R ++I+D + GVE + G ++ ARK V++
Sbjct: 175 GGAMLMDPLAKRAAALGVQIRYDTRATRLIVDD-DGRVVGVEARRYGETVAIRARKGVVL 233
Query: 313 SSGAF 317
++G F
Sbjct: 234 AAGGF 238
>gnl|CDD|227377 COG5044, MRS6, RAB proteins geranylgeranyltransferase component A
(RAB escort protein) [Posttranslational modification,
protein turnover, chaperones].
Length = 434
Score = 29.8 bits (67), Expect = 2.8
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGD 57
YD II+G G+ +++ LS VL I+ D
Sbjct: 6 LYDVIILGTGLRESILSAALS-WDGKNVLHIDKND 39
>gnl|CDD|223926 COG0857, Pta, BioD-like N-terminal domain of phosphotransacetylase
[General function prediction only].
Length = 354
Score = 29.6 bits (67), Expect = 2.8
Identities = 11/55 (20%), Positives = 18/55 (32%), Gaps = 7/55 (12%)
Query: 242 SIVQSTIKNGRRMTASKAYLKPIIDRTNL-------HVIKNSRVVKIIIDPISKQ 289
SI ++ + AY KPI RT I+ + +P+
Sbjct: 18 SISLGLLRALEQKGLKVAYFKPIGTRTGKDADDLTEEDIRATSSSLTYAEPLVLS 72
>gnl|CDD|143466 cd07148, ALDH_RL0313, Uncharacterized ALDH ( RL0313) with
similarity to Tortula ruralis aldehyde dehydrogenase
ALDH21A1. Uncharacterized aldehyde dehydrogenase (locus
RL0313) with sequence similarity to the moss Tortula
ruralis aldehyde dehydrogenase ALDH21A1 (RNP123)
believed to play an important role in the detoxification
of aldehydes generated in response to desiccation- and
salinity-stress, and similar sequences are included in
this CD.
Length = 455
Score = 29.7 bits (67), Expect = 3.0
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 15/79 (18%)
Query: 262 KPIIDRTNLHVIKNSRV---VKIIIDPISKQAKGVE----LVKNGHKRSVFARKE---VI 311
KP++D ++ +R V++ D + + G E L R F +E V+
Sbjct: 74 KPLVDA----KVEVTRAIDGVELAADELGQLG-GREIPMGLTPASAGRIAFTTREPIGVV 128
Query: 312 VSSGAFNSPKLLMLSGVGP 330
V+ AFN P L++ V P
Sbjct: 129 VAISAFNHPLNLIVHQVAP 147
>gnl|CDD|224550 COG1635, THI4, Ribulose 1,5-bisphosphate synthetase, converts
PRPP to RuBP, flavoprotein [Carbohydrate transport
and metabolism].
Length = 262
Score = 29.2 bits (66), Expect = 3.0
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 3/40 (7%)
Query: 18 KRLLD--EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEA 55
+ LLD E D IIVGAG G A+ L++ KV + E
Sbjct: 23 EDLLDYLESDVIIVGAGPSGLTAAYYLAK-AGLKVAIFER 61
>gnl|CDD|223108 COG0029, NadB, Aspartate oxidase [Coenzyme metabolism].
Length = 518
Score = 29.5 bits (67), Expect = 3.4
Identities = 11/29 (37%), Positives = 19/29 (65%), Gaps = 2/29 (6%)
Query: 25 DFIIVGAGVGGCVVAHRLSEVPSWKVLLI 53
D +I+G+G+ G A LS PS++V ++
Sbjct: 9 DVLIIGSGLAGLTAA--LSLAPSFRVTVL 35
>gnl|CDD|236010 PRK07395, PRK07395, L-aspartate oxidase; Provisional.
Length = 553
Score = 29.6 bits (67), Expect = 3.5
Identities = 11/52 (21%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 264 IIDRTNLHVIKNSRVVKIIIDPISKQAKGVELVKNGHKRSVFARKEVIVSSG 315
++ R N+ +I + + + ++P + + +G+ L+ G + A VI+++G
Sbjct: 144 VLQRPNIEIISQALALSLWLEPETGRCQGISLLYQGQITWLRAGA-VILATG 194
>gnl|CDD|221798 pfam12831, FAD_oxidored, FAD dependent oxidoreductase. This
family of proteins contains FAD dependent
oxidoreductases and related proteins.
Length = 415
Score = 29.1 bits (66), Expect = 3.9
Identities = 13/36 (36%), Positives = 17/36 (47%), Gaps = 7/36 (19%)
Query: 25 DFIIVGAGVGGC---VVAHRLSEVPSWKVLLIEAGD 57
D ++VG G G + A RL KVLL+E
Sbjct: 1 DVVVVGGGPAGVAAAIAAARL----GAKVLLVERRG 32
>gnl|CDD|215362 PLN02676, PLN02676, polyamine oxidase.
Length = 487
Score = 29.3 bits (66), Expect = 4.1
Identities = 17/35 (48%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 27 IIVGAGVGGCVVAHRLSEVPSWKVLLIEAGDEDRI 61
IIVGAG+ G A LSE +L++EA DRI
Sbjct: 30 IIVGAGMSGISAAKTLSEAGIEDILILEA--TDRI 62
>gnl|CDD|178566 PLN02985, PLN02985, squalene monooxygenase.
Length = 514
Score = 29.1 bits (65), Expect = 4.3
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 25 DFIIVGAGVGGCVVAHRLSE 44
D IIVGAGVGG +A+ L++
Sbjct: 45 DVIIVGAGVGGSALAYALAK 64
>gnl|CDD|240393 PTZ00383, PTZ00383, malate:quinone oxidoreductase; Provisional.
Length = 497
Score = 28.9 bits (65), Expect = 4.6
Identities = 17/40 (42%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 16 GNKRLLDEYDFIIVGAGVGGCVVAHRLSEVPSWK-VLLIE 54
GN+ D YD +IVG GV G + + LS+ + K + LIE
Sbjct: 38 GNRLGSDVYDVVIVGGGVTGTALFYTLSKFTNLKKIALIE 77
>gnl|CDD|235879 PRK06854, PRK06854, adenylylsulfate reductase subunit alpha;
Validated.
Length = 608
Score = 28.7 bits (65), Expect = 5.3
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 22 DEYDFIIVGAGVGGCVVAHRLSE-VPSWKVLLIE 54
+ D +I+G G+ GC A E P KVL++E
Sbjct: 10 VDTDILIIGGGMAGCGAAFEAKEWAPDLKVLIVE 43
>gnl|CDD|180321 PRK05949, PRK05949, RNA polymerase sigma factor; Validated.
Length = 327
Score = 28.7 bits (64), Expect = 5.9
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 15/59 (25%)
Query: 331 REHLTELGIPVVQDLRVGDN-------LMEHVAYSALTFGINKTFSVVTKRLLRQPIKT 382
RE+L+ P+ D+RVGDN L+E S + +T+ LLRQ +
Sbjct: 212 REYLSMARQPISLDVRVGDNQDTELSELLEDEGPSPDQY--------ITQELLRQDLNN 262
>gnl|CDD|223523 COG0446, HcaD, Uncharacterized NAD(FAD)-dependent dehydrogenases
[General function prediction only].
Length = 415
Score = 28.7 bits (64), Expect = 5.9
Identities = 11/53 (20%), Positives = 18/53 (33%), Gaps = 10/53 (18%)
Query: 26 FIIVGAGVGGCVVAHRL-SEVPSWKVLLIEAGDEDRIFTDLVLISHYYQFTPY 77
+IVG G G A L + + ++ LI + S+Y
Sbjct: 1 IVIVGGGAAGLSAATTLRRLLLAAEITLIGREPK---------YSYYRCPLSL 44
>gnl|CDD|183983 PRK13339, PRK13339, malate:quinone oxidoreductase; Reviewed.
Length = 497
Score = 28.5 bits (64), Expect = 6.2
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 25 DFIIVGAGVGGCVVAHRLSEV-PSWKVLLIEAGDEDRI 61
D ++VGAG+ L E+ P W + ++E D I
Sbjct: 8 DVVLVGAGILSTTFGVLLKELDPDWNIEVVERLDSPAI 45
>gnl|CDD|235660 PRK05976, PRK05976, dihydrolipoamide dehydrogenase; Validated.
Length = 472
Score = 28.7 bits (65), Expect = 6.3
Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAG 56
EYD +I+G G GG V A R ++ K L+E G
Sbjct: 4 EYDLVIIGGGPGGYVAAIRAGQL-GLKTALVEKG 36
>gnl|CDD|180319 PRK05945, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 575
Score = 28.5 bits (64), Expect = 7.0
Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEV-PSWKVLLI 53
E+D +IVG G+ GC A + + PS V ++
Sbjct: 3 EHDVVIVGGGLAGCRAALEIKRLDPSLDVAVV 34
>gnl|CDD|224992 COG2081, COG2081, Predicted flavoproteins [General function
prediction only].
Length = 408
Score = 28.3 bits (64), Expect = 7.3
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 24 YDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEAGD 57
+D II+G G G + A ++ +VLLI+ G
Sbjct: 4 FDVIIIGGGPAGLMAAISAAK-AGRRVLLIDKGP 36
>gnl|CDD|145231 pfam01946, Thi4, Thi4 family. This family includes a putative
thiamine biosynthetic enzyme.
Length = 229
Score = 28.2 bits (63), Expect = 7.4
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 23 EYDFIIVGAGVGGCVVAHRLSEVPSWKVLLIEA 55
E D +IVGAG G A+ L++ KV +IE
Sbjct: 17 ESDVVIVGAGPSGLTAAYYLAK-KGLKVAIIER 48
>gnl|CDD|173624 cd00192, PTKc, Catalytic domain of Protein Tyrosine Kinases.
Protein Tyrosine Kinase (PTK) family, catalytic domain.
This PTKc family is part of a larger superfamily that
includes the catalytic domains of protein
serine/threonine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase (PI3K). PTKs catalyze the transfer of the
gamma-phosphoryl group from ATP to tyrosine (tyr)
residues in protein substrates. They can be classified
into receptor and non-receptor tyr kinases. PTKs play
important roles in many cellular processes including,
lymphocyte activation, epithelium growth and
maintenance, metabolism control, organogenesis
regulation, survival, proliferation, differentiation,
migration, adhesion, motility, and morphogenesis.
Receptor tyr kinases (RTKs) are integral membrane
proteins which contain an extracellular ligand-binding
region, a transmembrane segment, and an intracellular
tyr kinase domain. RTKs are usually activated through
ligand binding, which causes dimerization and
autophosphorylation of the intracellular tyr kinase
catalytic domain, leading to intracellular signaling.
Some RTKs are orphan receptors with no known ligands.
Non-receptor (or cytoplasmic) tyr kinases are
distributed in different intracellular compartments and
are usually multi-domain proteins containing a catalytic
tyr kinase domain as well as various regulatory domains
such as SH3 and SH2. PTKs are usually autoinhibited and
require a mechanism for activation. In many PTKs, the
phosphorylation of tyr residues in the activation loop
is essential for optimal activity. Aberrant expression
of PTKs is associated with many development
abnormalities and cancers.
Length = 262
Score = 28.3 bits (64), Expect = 7.4
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 5/40 (12%)
Query: 128 WE--SLGNT---GWSFDDVLKYFKKFERINIPELNSDTVY 162
WE +LG T G S ++VL+Y +K R+ PE D +Y
Sbjct: 198 WEIFTLGATPYPGLSNEEVLEYLRKGYRLPKPEYCPDELY 237
>gnl|CDD|221815 pfam12864, DUF3822, Protein of unknown function (DUF3822). This is
a family of uncharacterized bacterial proteins. However,
structural-similarity searches indicate the family takes
on an actin-like ATPase fold.
Length = 248
Score = 28.0 bits (63), Expect = 7.7
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 15/73 (20%)
Query: 150 RINIPELNSDTVYHNT---NGLLNVEYSPYKS---KLSDIFLKVGLFNSDTVYHNTNGLL 203
+ N P L ++ + ++T N L+NV Y+P K+ L + F H + LL
Sbjct: 104 KFNAPILENEFILYDTLGKNNLVNV-YAPDKNINNFLFE------TFGEFEFIHQASPLL 156
Query: 204 NVEYSPYKSKLSD 216
EY S+
Sbjct: 157 --EYLLALSRNGT 167
>gnl|CDD|235944 PRK07135, dnaE, DNA polymerase III DnaE; Validated.
Length = 973
Score = 28.5 bits (64), Expect = 7.8
Identities = 25/110 (22%), Positives = 39/110 (35%), Gaps = 16/110 (14%)
Query: 147 KFERINIPELNSDTVY---HNTNGLLNVEYSPYKSKLSDIFLKVGLFNS------DTVYH 197
K + I + +L+SD + H NG Y + LK NS + VY
Sbjct: 96 KNKEIELNDLDSDNIIIIDHPKNGF-------YAKNKEQLELKNYYINSNDPKIENAVYV 148
Query: 198 NTNGLLNVEYSPYKSKLSDIFLKSSKELGYTNIDYNNPNTKIGFSIVQST 247
LL E + Y L+ I + + D+ I I++ T
Sbjct: 149 QERKLLFAEDNEYLKILNKIGNNKEENSNFKFFDFEKWFEDIDEKILKRT 198
>gnl|CDD|235977 PRK07233, PRK07233, hypothetical protein; Provisional.
Length = 434
Score = 28.3 bits (64), Expect = 8.1
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 28 IVGAGVGGCVVAHRLSEVPSWKVLLIEAGDE 58
IVG G+ G A+RL++ +V + EA D+
Sbjct: 4 IVGGGIAGLAAAYRLAK-RGHEVTVFEADDQ 33
>gnl|CDD|224346 COG1429, CobN, Cobalamin biosynthesis protein CobN and related
Mg-chelatases [Coenzyme metabolism].
Length = 1388
Score = 28.5 bits (64), Expect = 8.8
Identities = 13/60 (21%), Positives = 18/60 (30%), Gaps = 6/60 (10%)
Query: 307 RKEVIVSSGAF--NSPKLLMLSGVGPREHLTELGIPVVQDLRVGDNLMEHVAYSALTFGI 364
+ I+S F N E L L +PV+Q + E S G
Sbjct: 261 LVDAIISLTGFALNGSP----PRGAVEELLKRLNVPVLQAVVSSGTYREQWEESDSGLGP 316
>gnl|CDD|236794 PRK10917, PRK10917, ATP-dependent DNA helicase RecG; Provisional.
Length = 681
Score = 28.2 bits (64), Expect = 9.7
Identities = 14/23 (60%), Positives = 16/23 (69%), Gaps = 2/23 (8%)
Query: 325 LSGVGPR--EHLTELGIPVVQDL 345
L GVGP+ E L +LGI VQDL
Sbjct: 14 LKGVGPKTAEKLAKLGIHTVQDL 36
>gnl|CDD|223049 PHA03334, PHA03334, putative DNA polymerase catalytic subunit;
Provisional.
Length = 1545
Score = 28.3 bits (63), Expect = 9.8
Identities = 9/46 (19%), Positives = 20/46 (43%)
Query: 240 GFSIVQSTIKNGRRMTASKAYLKPIIDRTNLHVIKNSRVVKIIIDP 285
GF+ ++ ++ + KA LK L KN+++ + +
Sbjct: 1121 GFTDWRNLVQYSGLIPRKKAELKSKRTNYGLFNGKNNKIPYVTLHK 1166
>gnl|CDD|226734 COG4284, COG4284, UDP-glucose pyrophosphorylase [Carbohydrate
transport and metabolism].
Length = 472
Score = 28.1 bits (63), Expect = 9.8
Identities = 14/63 (22%), Positives = 19/63 (30%), Gaps = 1/63 (1%)
Query: 137 SFDDVLKYFKKFERI-NIPELNSDTVYHNTNGLLNVEYSPYKSKLSDIFLKVGLFNSDTV 195
FD+V + RI I EL T+ N NV S + +
Sbjct: 410 HFDNVETFTCGIPRIPLILELEGLTISGNVLFGRNVTLKYASENTSLCIPNKSFLENVII 469
Query: 196 YHN 198
N
Sbjct: 470 TGN 472
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
0.319 0.138 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: 19,902,368
Number of extensions: 1960969
Number of successful extensions: 2054
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2030
Number of HSP's successfully gapped: 117
Length of query: 385
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 286
Effective length of database: 6,546,556
Effective search space: 1872315016
Effective search space used: 1872315016
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (26.8 bits)