RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6141
(144 letters)
>gnl|CDD|215702 pfam00083, Sugar_tr, Sugar (and other) transporter.
Length = 449
Score = 63.1 bits (154), Expect = 1e-12
Identities = 32/137 (23%), Positives = 59/137 (43%), Gaps = 10/137 (7%)
Query: 9 LTVSLGSMIVGFASAYTSPAIPSMNQ-----MGSRVSPTEEEASWIG---SLMPLSALFG 60
L +LG + G+ + + + + + G S+ + L G
Sbjct: 3 LVAALGGFLFGYDTGVIGAFLTLIKFFKRFGALTSIGACAASTVLSGLIVSIFSVGCLIG 62
Query: 61 GMAGGPLIESLGRRTTILSTGLPFIVSFLLIALANG--VPMILAGRCVAGFCVGIASLAL 118
+ G L + GR+ ++L + F++ LL A G M++ GR + G VG S+ +
Sbjct: 63 SLFAGKLGDRFGRKKSLLIGNVLFVIGALLQGFAKGKSFYMLIVGRVIVGLGVGGISVLV 122
Query: 119 PVYLGETVQPEVRGTLG 135
P+Y+ E ++RG LG
Sbjct: 123 PMYISEIAPKKLRGALG 139
>gnl|CDD|233165 TIGR00879, SP, MFS transporter, sugar porter (SP) family. This
model represent the sugar porter subfamily of the major
facilitator superfamily (pfam00083) [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 481
Score = 58.9 bits (143), Expect = 4e-11
Identities = 38/140 (27%), Positives = 66/140 (47%), Gaps = 8/140 (5%)
Query: 4 AVLASLTVSLGSMIVGFASAYTSPAIPSMN---QMGSRVSPTEEEASW--IGSLMPLSAL 58
L SL ++G ++ G+ + A+ + S S + + W + S+ +
Sbjct: 26 VALLSLIAAIGGLMFGYDTGVIGGALALPAFEFKFTSANSDSYSSSLWGLVVSIFLVGGF 85
Query: 59 FGGMAGGPLIESLGRRTTILSTGLPFIVSFLLIALAN---GVPMILAGRCVAGFCVGIAS 115
G + G L + GR+ ++L L F++ +L+ LA V M++ GR + G VGIAS
Sbjct: 86 IGALFAGWLSDRFGRKKSLLIIALLFVIGAILMGLAAFALSVEMLIVGRVLLGIGVGIAS 145
Query: 116 LALPVYLGETVQPEVRGTLG 135
+P+YL E +RG L
Sbjct: 146 ALVPMYLSEIAPKALRGALT 165
>gnl|CDD|119392 cd06174, MFS, The Major Facilitator Superfamily (MFS) is a large
and diverse group of secondary transporters that
includes uniporters, symporters, and antiporters. MFS
proteins facilitate the transport across cytoplasmic or
internal membranes of a variety of substrates including
ions, sugar phosphates, drugs, neurotransmitters,
nucleosides, amino acids, and peptides. They do so using
the electrochemical potential of the transported
substrates. Uniporters transport a single substrate,
while symporters and antiporters transport two
substrates in the same or in opposite directions,
respectively, across membranes. MFS proteins are
typically 400 to 600 amino acids in length, and the
majority contain 12 transmembrane alpha helices (TMs)
connected by hydrophilic loops. The N- and C-terminal
halves of these proteins display weak similarity and may
be the result of a gene duplication/fusion event. Based
on kinetic studies and the structures of a few bacterial
superfamily members, GlpT (glycerol-3-phosphate
transporter), LacY (lactose permease), and EmrD
(multidrug transporter), MFS proteins are thought to
function through a single substrate binding site,
alternating-access mechanism involving a rocker-switch
type of movement. Bacterial members function primarily
for nutrient uptake, and as drug-efflux pumps to confer
antibiotic resistance. Some MFS proteins have medical
significance in humans such as the glucose transporter
Glut4, which is impaired in type II diabetes, and
glucose-6-phosphate transporter (G6PT), which causes
glycogen storage disease when mutated.
Length = 352
Score = 44.6 bits (106), Expect = 3e-06
Identities = 36/136 (26%), Positives = 58/136 (42%), Gaps = 3/136 (2%)
Query: 9 LTVSLGSMIVGFASAYTSPAIPSMNQMGSRVSPTEEEASWIGSLMPLSALFGGMAGGPLI 68
L + LG + G SPA+P + + + + +A I S L G + G L
Sbjct: 2 LLLFLGFFLSGLDRGLLSPALPLLAED---LGLSASQAGLIVSAFSLGYALGSLLAGYLS 58
Query: 69 ESLGRRTTILSTGLPFIVSFLLIALANGVPMILAGRCVAGFCVGIASLALPVYLGETVQP 128
+ GRR +L L F + LL+A A+ + ++L GR + G G A + E P
Sbjct: 59 DRFGRRRVLLLGLLLFALGSLLLAFASSLWLLLVGRFLLGLGGGALYPAAAALIAEWFPP 118
Query: 129 EVRGTLGLLPTFLGNI 144
+ RG L + +
Sbjct: 119 KERGRALGLFSAGFGL 134
Score = 31.5 bits (72), Expect = 0.11
Identities = 39/137 (28%), Positives = 58/137 (42%), Gaps = 1/137 (0%)
Query: 9 LTVSLGSMIVGFASAYTSPAIPSMNQMGSRVSPTEEEASWIGSLMPLSALFGGMAGGPLI 68
L + L + Y + + + EA + SL L + G + GG L
Sbjct: 176 LLLLLALAFFLLSFGYYGLLTYLPLYLQEVLGLSAAEAGLLLSLFGLGGILGALLGGLLS 235
Query: 69 ESLGRRTTILSTGLPF-IVSFLLIALANGVPMILAGRCVAGFCVGIASLALPVYLGETVQ 127
+ LGRR +L GL + LL+ALA + ++L + GF +G A AL E
Sbjct: 236 DRLGRRRLLLLIGLLLAALGLLLLALAPSLALLLVALLLLGFGLGFAFPALLTLASELAP 295
Query: 128 PEVRGTLGLLPTFLGNI 144
PE RGT L G++
Sbjct: 296 PEARGTASGLFNTFGSL 312
>gnl|CDD|219516 pfam07690, MFS_1, Major Facilitator Superfamily.
Length = 346
Score = 43.6 bits (103), Expect = 9e-06
Identities = 27/122 (22%), Positives = 48/122 (39%), Gaps = 2/122 (1%)
Query: 11 VSLGSMIVGFASAYTSPAIPSMNQMGSRVSPTEEEASWIGSLMPLSALFGGMAGGPLIES 70
+ L + + G + PA+P + + + E + + L G L +
Sbjct: 1 LFLAAFLAGLGRSLLGPALPLY--LAEDLGISPTEIGLLLTAFSLGYALAQPLAGRLSDR 58
Query: 71 LGRRTTILSTGLPFIVSFLLIALANGVPMILAGRCVAGFCVGIASLALPVYLGETVQPEV 130
GRR +L L F + LL+ A+ + ++L R + G G A + + PE
Sbjct: 59 FGRRRVLLIGLLLFALGLLLLLFASSLWLLLVLRVLQGLGGGALFPAAAALIADWFPPEE 118
Query: 131 RG 132
RG
Sbjct: 119 RG 120
>gnl|CDD|182225 PRK10077, xylE, D-xylose transporter XylE; Provisional.
Length = 479
Score = 40.8 bits (96), Expect = 9e-05
Identities = 37/145 (25%), Positives = 61/145 (42%), Gaps = 19/145 (13%)
Query: 8 SLTVSLGSMIVGFASAYTSPAIPSMNQ--MGSRVSPTEEEASWIGSLMPLSAL----FGG 61
+L +LG ++ G+ +A S + S+N + + S +G SAL GG
Sbjct: 14 TLVATLGGLLFGYDTAVISGTVESLNTVFVAPQNLSESAANSLLG-FCVASALIGCIIGG 72
Query: 62 MAGGPLIESLGRRTTILSTGLPFIVS--------FLLIAL----ANGVPMILAGRCVAGF 109
GG GRR ++ + F +S F ++ VP + R + G
Sbjct: 73 ALGGYCSNRFGRRDSLKIAAVLFFISALGSAWPEFGFTSIGPDNTGYVPEFVIYRIIGGI 132
Query: 110 CVGIASLALPVYLGETVQPEVRGTL 134
VG+AS+ P+Y+ E +RG L
Sbjct: 133 GVGLASMLSPMYIAEIAPAHIRGKL 157
>gnl|CDD|233175 TIGR00895, 2A0115, benzoate transport. [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids].
Length = 398
Score = 35.8 bits (83), Expect = 0.004
Identities = 29/90 (32%), Positives = 42/90 (46%)
Query: 45 EASWIGSLMPLSALFGGMAGGPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMILAGR 104
+ ++ S + FG + GPL + +GRR +L + L F V LL ALA V +L R
Sbjct: 53 QLGFLFSAGLIGMAFGALFFGPLADRIGRRRVLLWSILLFSVFTLLCALATNVTQLLILR 112
Query: 105 CVAGFCVGIASLALPVYLGETVQPEVRGTL 134
+AG +G L + E RGT
Sbjct: 113 FLAGLGLGGLMPNLNALVSEYAPKRFRGTA 142
Score = 31.2 bits (71), Expect = 0.17
Identities = 21/90 (23%), Positives = 35/90 (38%)
Query: 44 EEASWIGSLMPLSALFGGMAGGPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMILAG 103
A+ G+L + G + G L + LG R T L L + + L+ + ++L
Sbjct: 285 SLAATGGALFNFGGVIGSIIFGWLADRLGPRVTALLLLLGAVFAVLVGSTLFSPTLLLLL 344
Query: 104 RCVAGFCVGIASLALPVYLGETVQPEVRGT 133
+AGF V L + +R T
Sbjct: 345 GAIAGFFVNGGQSGLYALMALFYPTAIRAT 374
>gnl|CDD|233172 TIGR00891, 2A0112, putative sialic acid transporter. [Transport
and binding proteins, Carbohydrates, organic alcohols,
and acids].
Length = 405
Score = 34.5 bits (79), Expect = 0.013
Identities = 26/103 (25%), Positives = 38/103 (36%), Gaps = 7/103 (6%)
Query: 46 ASWIGSLMPLSALFGGMAGGPLIESLGRRTTIL----STGLPFIVSFLLIALANGVPMIL 101
+ I + A+ GG G L + LGRR + + L I F A+ V ++
Sbjct: 276 VANIVVFSNIGAIVGGCVFGFLGDWLGRRKAYVCSLLAGQLLIIPVF---AIGANVAVLG 332
Query: 102 AGRCVAGFCVGIASLALPVYLGETVQPEVRGTLGLLPTFLGNI 144
G V LP +LGE + R LGN+
Sbjct: 333 LGLFFQQMLVQGIWGILPKHLGEYFPTDQRAAGLGFTYQLGNL 375
>gnl|CDD|233174 TIGR00893, 2A0114, D-galactonate transporter. [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 399
Score = 33.8 bits (78), Expect = 0.020
Identities = 27/109 (24%), Positives = 44/109 (40%), Gaps = 9/109 (8%)
Query: 44 EEASWIGSLMPLSALFGGMAGGPLIESLGRRTTILS-----TGLPFIVSFLLIALANGVP 98
EA ++ SL + G + GG L + L RR L + +V LL+ N V
Sbjct: 251 LEAGFMASLPGIVGFIGMILGGRLSDLLLRRGKSLVFARKTAIIAGLVLSLLMFATNYVN 310
Query: 99 ---MILAGRCVAGFCVGIASLALPVYLGETVQPEVRGTLGLLPTFLGNI 144
LA + F +G ++ + + + + G G L LGN+
Sbjct: 311 IPYAALALVALGFFGLGAGAIGWAL-ISDNAPGNIAGLTGGLINSLGNL 358
>gnl|CDD|130366 TIGR01299, synapt_SV2, synaptic vesicle protein SV2. This model
describes a tightly conserved subfamily of the larger
family of sugar (and other) transporters described by
PFAM model pfam00083. Members of this subfamily include
closely related forms SV2A and SV2B of synaptic vesicle
protein from vertebrates and a more distantly related
homolog (below trusted cutoff) from Drosophila
melanogaster. Members are predicted to have two sets of
six transmembrane helices.
Length = 742
Score = 32.6 bits (74), Expect = 0.049
Identities = 31/123 (25%), Positives = 47/123 (38%), Gaps = 24/123 (19%)
Query: 17 IVGFA--SAYTSPAIPSMNQMGSRVSPTEEEASWIGSLMPLSALFGGMAGGPLIESLGRR 74
+VGF SA IP + +G ++ L + G G L + LGR+
Sbjct: 185 VVGFVLPSAEKDLCIPDSGK------------GMLGLIVYLGMMVGAFFWGGLADKLGRK 232
Query: 75 TTIL-----STGLPFIVSFLLIALANGVPMILAGRCVAGFCVGIASLALPVYLGETVQPE 129
+L + F SF+ G L R ++GF +G A + Y E + E
Sbjct: 233 QCLLICLSVNGFFAFFSSFV-----QGYGFFLFCRLLSGFGIGGAIPIVFSYFAEFLAQE 287
Query: 130 VRG 132
RG
Sbjct: 288 KRG 290
>gnl|CDD|222060 pfam13347, MFS_2, MFS/sugar transport protein. This family is part
of the major facilitator superfamily of membrane
transport proteins.
Length = 425
Score = 32.6 bits (75), Expect = 0.055
Identities = 17/86 (19%), Positives = 35/86 (40%), Gaps = 2/86 (2%)
Query: 43 EEEASWIGSLMPLSALFGGMAGGPLIESLGRRTTILSTGLPFIVSFLLIALA--NGVPMI 100
S + + ++A+ G L + G++ T L L + +L+ + +
Sbjct: 256 AGLFSVLLLIGTIAAILGAPLWPWLAKRFGKKRTFLLGMLLAAIGLVLLFFLPPGSLWLF 315
Query: 101 LAGRCVAGFCVGIASLALPVYLGETV 126
L +AG +G+A+L L + V
Sbjct: 316 LVLVVLAGIGLGLATLLPWAMLADVV 341
>gnl|CDD|233099 TIGR00710, efflux_Bcr_CflA, drug resistance transporter, Bcr/CflA
subfamily. This subfamily of drug efflux proteins, a
part of the major faciliator family, is predicted to
have 12 membrane-spanning regions. Members with known
activity include Bcr (bicyclomycin resistance protein)
in E. coli, Flor (chloramphenicol and florfenicol
resistance) in Salmonella typhimurium DT104, and CmlA
(chloramphenicol resistance) in Pseudomonas sp. plasmid
R1033.
Length = 385
Score = 32.4 bits (74), Expect = 0.059
Identities = 22/68 (32%), Positives = 30/68 (44%), Gaps = 5/68 (7%)
Query: 53 MPLSALFGGMAG-----GPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMILAGRCVA 107
M L+ G A GPL + GRR +L F +S L +AL+N + +L R V
Sbjct: 44 MTLTLYLLGFAAGQLLWGPLSDRYGRRPVLLLGLFIFALSSLGLALSNNIETLLVLRFVQ 103
Query: 108 GFCVGIAS 115
F S
Sbjct: 104 AFGASAGS 111
>gnl|CDD|225371 COG2814, AraJ, Arabinose efflux permease [Carbohydrate transport
and metabolism].
Length = 394
Score = 31.8 bits (73), Expect = 0.092
Identities = 30/113 (26%), Positives = 46/113 (40%), Gaps = 3/113 (2%)
Query: 1 MKSAVLASLTVSLGSMIVGFASAYTSPAIPSMNQMGSRVSPTEEEASWIGSLMPLSALFG 60
K LA L ++L + +G +P + + + +E A + + L G
Sbjct: 8 RKPMWLALLALALAAFAIGTTEFVPVGLLP---PIAADLGVSEGAAGQLITAYALGVALG 64
Query: 61 GMAGGPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMILAGRCVAGFCVGI 113
L L RR +L FIVS LL ALA ++L R +AG G+
Sbjct: 65 APLLALLTGRLERRRLLLGLLALFIVSNLLSALAPSFAVLLLARALAGLAHGV 117
>gnl|CDD|183259 PRK11652, emrD, multidrug resistance protein D; Provisional.
Length = 394
Score = 29.9 bits (68), Expect = 0.47
Identities = 15/50 (30%), Positives = 26/50 (52%)
Query: 65 GPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMILAGRCVAGFCVGIA 114
GPL + +GRR IL FI+ L+ A+ + +++A + G G+
Sbjct: 64 GPLSDRVGRRPVILVGMSIFILGTLVALFAHSLTVLIAASAIQGLGTGVG 113
>gnl|CDD|233128 TIGR00792, gph, sugar (Glycoside-Pentoside-Hexuronide) transporter.
The Glycoside-Pentoside-Hexuronide (GPH):Cation
Symporter Family (TC 2.A.2) GPH:cation symporters
catalyze uptake of sugars in symport with a monovalent
cation (H+ or Na+). Members of this family includes
transporters for melibiose, lactose, raffinose,
glucuronides, pentosides and isoprimeverose. Mutants of
two groups of these symporters (the melibiose permeases
of enteric bacteria, and the lactose permease of
Streptococcus thermophilus) have been isolated in which
altered cation specificity is observed or in which sugar
transport is uncoupled from cation symport (i.e.,
uniport is catalyzed). The various members of the family
can use Na+, H+ or Li, Na+ or Li+, H+ or Li+, or only H+
as the symported cation. All of these proteins possess
twelve putative transmembrane a-helical spanners
[Transport and binding proteins, Carbohydrates, organic
alcohols, and acids].
Length = 437
Score = 29.5 bits (67), Expect = 0.58
Identities = 19/86 (22%), Positives = 39/86 (45%), Gaps = 1/86 (1%)
Query: 42 TEEEASWIGSLMPLSALFGGMAGGPLIESLGRRTTILSTGLPFIVSFLLI-ALANGVPMI 100
E S++GS+ + L G + L++ GR+ L ++ +L+ + +P+I
Sbjct: 255 DPELFSYMGSIAIGAGLIGVLLFPRLVKKFGRKILFAGGILLMVLGYLIFFFAGSNLPLI 314
Query: 101 LAGRCVAGFCVGIASLALPVYLGETV 126
L +AGF + + + +TV
Sbjct: 315 LVLIILAGFGQNFVTGLVWALVADTV 340
>gnl|CDD|180606 PRK06525, PRK06525, hydrogenase 4 subunit D; Validated.
Length = 479
Score = 29.2 bits (66), Expect = 0.76
Identities = 10/38 (26%), Positives = 15/38 (39%)
Query: 81 GLPFIVSFLLIALANGVPMILAGRCVAGFCVGIASLAL 118
+++ LL + V L GR A V A+L
Sbjct: 1 ENLALLTLLLPFIGALVVFFLPGRRAAELGVLFAALTT 38
>gnl|CDD|200465 cd11326, AmyAc_Glg_debranch, Alpha amylase catalytic domain found
in glycogen debranching enzymes. Debranching enzymes
facilitate the breakdown of glycogen through
glucosyltransferase and glucosidase activity. These
activities are performed by a single enzyme in mammals,
yeast, and some bacteria, but by two distinct enzymes in
Escherichia coli and other bacteria. Debranching enzymes
perform two activities: 4-alpha-D-glucanotransferase (EC
2.4.1.25) and amylo-1,6-glucosidase (EC 3.2.1.33).
4-alpha-D-glucanotransferase catalyzes the
endohydrolysis of 1,6-alpha-D-glucoside linkages at
points of branching in chains of 1,4-linked
alpha-D-glucose residues. Amylo-alpha-1,6-glucosidase
catalyzes the endohydrolysis of 1,6-alpha-D-glucoside
linkages at points of branching in chains of 1,4-linked
alpha-D-glucose residues. In Escherichia coli, GlgX is
the debranching enzyme and malQ is the
4-alpha-glucanotransferase. TreX, an archaeal
glycogen-debranching enzyme has dual activities like
mammals and yeast, but is structurally similar to GlgX.
TreX exists in two oligomeric states, a dimer and
tetramer. Isoamylase (EC 3.2.1.68) is one of the
starch-debranching enzymes that catalyzes the hydrolysis
of alpha-1,6-glucosidic linkages specific in
alpha-glucans such as amylopectin or glycogen and their
beta-limit dextrins. The Alpha-amylase family comprises
the largest family of glycoside hydrolases (GH), with
the majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 433
Score = 29.0 bits (66), Expect = 0.96
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 93 LANGVPMILAG 103
L+ G PM+LAG
Sbjct: 375 LSQGTPMLLAG 385
>gnl|CDD|236319 PRK08641, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 589
Score = 28.8 bits (65), Expect = 1.1
Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 4/32 (12%)
Query: 55 LSALFGGMAGGP----LIESLGRRTTILSTGL 82
LSA++GGM GP I+ LG+ +S+ +
Sbjct: 393 LSAIYGGMVAGPNAVEYIKGLGKSADDVSSSV 424
>gnl|CDD|182964 PRK11102, PRK11102, bicyclomycin/multidrug efflux system;
Provisional.
Length = 377
Score = 28.3 bits (64), Expect = 1.3
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 53 MPLSALFGGMA-----GGPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMILAGRCVA 107
M LSA G A GP+ +S GR+ IL L F ++ + ALA + ++ R +
Sbjct: 30 MTLSAYILGFAIGQLFYGPMADSFGRKPVILGGTLVFALAAVACALAQTIDQLIYMRFLH 89
Query: 108 GFCVGIAS 115
G AS
Sbjct: 90 GLAAAAAS 97
>gnl|CDD|237902 PRK15075, PRK15075, citrate-proton symporter; Provisional.
Length = 434
Score = 28.0 bits (63), Expect = 1.7
Identities = 30/94 (31%), Positives = 39/94 (41%), Gaps = 13/94 (13%)
Query: 48 WIGSLM-PLSALFGGMAGGPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMI------ 100
G LM PL A+ G I+ +GRR ++ T LLIA G I
Sbjct: 63 GAGFLMRPLGAIVLG----AYIDRVGRRKGLIVTLSIMASGTLLIAFVPGYATIGLAAPL 118
Query: 101 --LAGRCVAGFCVGIASLALPVYLGETVQPEVRG 132
L GR + GF G+ + VYL E P +G
Sbjct: 119 LVLLGRLLQGFSAGVELGGVSVYLAEIATPGRKG 152
>gnl|CDD|185300 PRK15402, PRK15402, multidrug efflux system translocase MdfA;
Provisional.
Length = 406
Score = 27.6 bits (62), Expect = 2.2
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 5/67 (7%)
Query: 46 ASWIGSLMPLSALFGGMA----GGPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMIL 101
A W+ + M L GGM GPL + +GRR +L+ FI++ L I LA +
Sbjct: 47 AEWVPTSMTAY-LAGGMFLQWLLGPLSDRIGRRPVMLAGVAFFILTCLAILLAQSIEQFT 105
Query: 102 AGRCVAG 108
R + G
Sbjct: 106 LLRFLQG 112
>gnl|CDD|233166 TIGR00880, 2_A_01_02, Multidrug resistance protein.
Length = 141
Score = 26.8 bits (60), Expect = 2.6
Identities = 20/78 (25%), Positives = 36/78 (46%)
Query: 55 LSALFGGMAGGPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMILAGRCVAGFCVGIA 114
L L G L + GR+ +L F++S + AL++ + +++ R + GF A
Sbjct: 9 LGQLIYSPLSGLLTDRFGRKPVLLVGLFIFVLSTAMFALSSNITVLIIARFLQGFGAAFA 68
Query: 115 SLALPVYLGETVQPEVRG 132
+A + + PE RG
Sbjct: 69 LVAGAALIADIYPPEERG 86
>gnl|CDD|224440 COG1523, PulA, Type II secretory pathway, pullulanase PulA and
related glycosidases [Carbohydrate transport and
metabolism].
Length = 697
Score = 27.3 bits (61), Expect = 3.3
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 9/35 (25%)
Query: 78 LSTGLPFIVS--------FLLI-ALANGVPMILAG 103
TG PFI + L L+ G PM+LAG
Sbjct: 507 GPTGDPFIHAGRERQRTNLLATLLLSQGTPMLLAG 541
>gnl|CDD|129561 TIGR00469, pheS_mito, phenylalanyl-tRNA synthetase, mitochondrial.
Unlike all other known phenylalanyl-tRNA synthetases,
the mitochondrial form demonstrated from yeast is
monomeric. It is similar to but longer than the alpha
subunit (PheS) of the alpha 2 beta 2 form found in
Bacteria, Archaea, and eukaryotes, and shares the
characteristic motifs of class II aminoacyl-tRNA
ligases. This model models the experimental example from
Saccharomyces cerevisiae (designated MSF1) and its
orthologs from other eukaryotic species [Protein
synthesis, tRNA aminoacylation].
Length = 460
Score = 27.3 bits (60), Expect = 3.4
Identities = 11/41 (26%), Positives = 17/41 (41%)
Query: 17 IVGFASAYTSPAIPSMNQMGSRVSPTEEEASWIGSLMPLSA 57
I G I SM + + +P E + WI + P +A
Sbjct: 236 IEGITKDLFGKKISSMIKNKANNTPKELKVRWIDAYFPFTA 276
>gnl|CDD|131155 TIGR02100, glgX_debranch, glycogen debranching enzyme GlgX. This
family consists of the GlgX protein from the E. coli
glycogen operon and probable equivalogs from other
prokaryotic species. GlgX is not required for glycogen
biosynthesis, but instead acts as a debranching enzyme
for glycogen catabolism. This model distinguishes GlgX
from pullanases and other related proteins that also
operate on alpha-1,6-glycosidic linkages. In the wide
band between the trusted and noise cutoffs are
functionally similar enzymes, mostly from plants, that
act similarly but usually are termed isoamylase [Energy
metabolism, Biosynthesis and degradation of
polysaccharides].
Length = 688
Score = 26.9 bits (60), Expect = 4.9
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 93 LANGVPMILAG 103
L+ G PM+LAG
Sbjct: 511 LSQGTPMLLAG 521
>gnl|CDD|236927 PRK11551, PRK11551, putative 3-hydroxyphenylpropionic transporter
MhpT; Provisional.
Length = 406
Score = 26.5 bits (59), Expect = 5.7
Identities = 27/86 (31%), Positives = 39/86 (45%)
Query: 48 WIGSLMPLSALFGGMAGGPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMILAGRCVA 107
W S L L G + GG L + +GR+ ++ + F + L A A P +L R +
Sbjct: 54 WAFSAGILGLLPGALLGGRLADRIGRKRILIVSVALFGLFSLATAQAWDFPSLLVARLLT 113
Query: 108 GFCVGIASLALPVYLGETVQPEVRGT 133
G +G A L E V P +RGT
Sbjct: 114 GVGLGGALPNLIALTSEAVGPRLRGT 139
>gnl|CDD|225538 COG2991, COG2991, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 77
Score = 25.2 bits (55), Expect = 7.4
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 86 VSFLLIALANGVPMILAGRCVAGFCVGIASLAL 118
FLL+ + I + + G C GIA+L +
Sbjct: 9 GIFLLVIAGMSIGYIFKRKSIKGSCGGIAALGI 41
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
0.321 0.138 0.399
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,368,681
Number of extensions: 687692
Number of successful extensions: 1109
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1091
Number of HSP's successfully gapped: 156
Length of query: 144
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 56
Effective length of database: 7,034,450
Effective search space: 393929200
Effective search space used: 393929200
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (24.6 bits)