RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11593
(400 letters)
>gnl|CDD|217924 pfam04142, Nuc_sug_transp, Nucleotide-sugar transporter. This
family of membrane proteins transport nucleotide sugars
from the cytoplasm into golgi vesicles. Human SLC35A1
transports CMP-sialic acid, SLC35A2 transports
UDP-galactose and SLC35A3 transports UDP-GlcNAc.
Length = 238
Score = 302 bits (775), Expect = e-102
Identities = 129/238 (54%), Positives = 164/238 (68%), Gaps = 1/238 (0%)
Query: 140 RFINLVRAHTIQNPLDTLKVGVPALLYVIQNNLLYISASNLDAATSQVTYQLKILTTAIF 199
+F + NP DTLKV VPA +Y +QNNLLY++ SNLDAAT QVTYQLKILTTA+F
Sbjct: 1 KFSRELHKAIFNNPSDTLKVAVPAFIYTLQNNLLYVALSNLDAATYQVTYQLKILTTALF 60
Query: 200 AIILLKKKISKIQWISLVILVVGVALVQLSSV-VEKARPADFVENRMLGFAATILACLLS 258
++++L +K+S QW SL++L +GVA+VQL E +N LG +A + AC S
Sbjct: 61 SVLMLGRKLSWYQWASLLLLFLGVAIVQLDQKSSETNSKRGAEQNPGLGLSAVLAACFTS 120
Query: 259 GLAGVYFEMILKGSDVSIWMRNVQLSLLSLPCAACTCFISDWDKIFQHGFFYNYTWFIVF 318
G AGVYFE ILKGS+ SIW+RN+QL + A TC++ D I + GFF+ YT F+
Sbjct: 121 GFAGVYFEKILKGSNTSIWIRNIQLYFFGIFFALLTCWLYDGSAISEKGFFFGYTAFVWA 180
Query: 319 LVLLNASGGLIVAVVVKYADNILKGFATSLAIVLACVFQVYLFAFVITFQFIVGAFFV 376
+VLL A GGL+VAVVVKYADNILKGFATSLAI+L+ V V LF F T F++GA V
Sbjct: 181 VVLLQAVGGLVVAVVVKYADNILKGFATSLAIILSTVASVLLFDFRPTLTFLLGAILV 238
>gnl|CDD|129885 TIGR00803, nst, UDP-galactose transporter. The 10-12 TMS
Nucleotide Sugar Transporters (TC
2.A.7.10)Nucleotide-sugar transporters (NSTs) are found
in the Golgi apparatus and the endoplasmic reticulum of
eukaryotic cells. Members of the family have been
sequenced from yeast, protozoans and animals. Animals
such as C. elegans possess many of these transporters.
Humans have at least two closely related isoforms of the
UDP-galactose:UMP exchange transporter.NSTs generally
appear to function by antiport mechanisms, exchanging a
nucleotide-sugar for a nucleotide. Thus, CMP-sialic acid
is exchanged for CMP; GDP-mannose is preferentially
exchanged for GMP, and UDP-galactose and
UDP-N-acetylglucosamine are exchanged for UMP (or
possibly UDP). Other nucleotide sugars (e.g.,
GDP-fucose, UDP-xylose, UDP-glucose,
UDP-N-acetylgalactosamine, etc.) may also be transported
in exchange for various nucleotides, but their
transporters have not been molecularly characterized.
Each compound appears to be translocated by its own
transport protein. Transport allows the compound,
synthesized in the cytoplasm, to be exported to the
lumen of the Golgi apparatus or the endoplasmic
reticulum where it is used for the synthesis of
glycoproteins and glycolipids.
Length = 222
Score = 159 bits (403), Expect = 1e-46
Identities = 94/227 (41%), Positives = 123/227 (54%), Gaps = 6/227 (2%)
Query: 158 KVGVPALLYVIQNNLLYISASNLDAATSQVTYQLKILTTAIFAIILLKKKISKIQWISLV 217
K+ VP + QNNL+ I+ NL AA QVT QLKIL+TA+ + L + QW SL
Sbjct: 1 KLSVPIHIIFKQNNLVLIALGNLLAAGKQVT-QLKILSTALMTLGSLVASLGDDQWFSLK 59
Query: 218 ILVVGVALVQLSSVVEKA-RPADFVENRMLGFAATILACLLSGLAGVYFEMILKGSDVSI 276
+L +GVA+VQ+ K + V +G +A + A L SG AGVYFE ILK D
Sbjct: 60 LLKLGVAIVQMVQSSAKTLMFGNPV----VGLSAVLSALLSSGFAGVYFEKILKDGDTMF 115
Query: 277 WMRNVQLSLLSLPCAACTCFISDWDKIFQHGFFYNYTWFIVFLVLLNASGGLIVAVVVKY 336
W RN+QL L L SD I GFF Y + + LLN GGL + VV+Y
Sbjct: 116 WSRNLQLPLFGLFSTFSVLLWSDGTLISNFGFFIGYPTAVWIVGLLNVGGGLCIGGVVRY 175
Query: 337 ADNILKGFATSLAIVLACVFQVYLFAFVITFQFIVGAFFVMCSVFLY 383
ADN K F T+L+I+L+ + V LF I+ F +GA V + FLY
Sbjct: 176 ADNTTKSFVTALSIILSTLASVRLFDAKISSTFYLGAILVFLATFLY 222
>gnl|CDD|219846 pfam08449, UAA, UAA transporter family. This family includes
transporters with a specificity for
UDP-N-acetylglucosamine.
Length = 303
Score = 48.8 bits (117), Expect = 2e-06
Identities = 43/209 (20%), Positives = 73/209 (34%), Gaps = 28/209 (13%)
Query: 192 KILTTAIFAIILLKKKISKIQWISLVILVVGVALVQLSSVVEKARPADFVENRMLGFAAT 251
K++ I I++ K+ S +Q++S +++ +GV + L+S + + +G A
Sbjct: 100 KLIPVMILGILIYGKRYSSLQYLSALLITLGVIIFTLASAKDSKNSKLTTFSDNVGIALL 159
Query: 252 ILACLLSGLAGVYFEMILKGSDVSIW--MRNVQL-----SLLSLPCAACTCFISDWDKIF 304
A L+ L G E + K M L LL L S
Sbjct: 160 FGALLMDALTGNTQEKLYKKYGKHSKEMMFYSHLLSLPFFLLGLLDIRTGLLFSAESFCL 219
Query: 305 QHGFFYNYTWFIVF---------LVLLNASGGLIVAVVVKYADNILKGFATSLAIVLACV 355
+H Y L++ G L V +V + K + +
Sbjct: 220 RHPSVLFYLLLNSLTQYVGQFFVFYLISEFGALTVTLVT----TLRKFVSL--------L 267
Query: 356 FQVYLFAFVITFQFIVGAFFVMCSVFLYS 384
V LF +T Q +G V +FLY+
Sbjct: 268 LSVLLFGNPLTLQQWLGTLLVFLGIFLYA 296
>gnl|CDD|223769 COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT)
superfamily [Carbohydrate transport and metabolism /
Amino acid transport and metabolism / General function
prediction only].
Length = 292
Score = 46.8 bits (111), Expect = 8e-06
Identities = 42/229 (18%), Positives = 84/229 (36%), Gaps = 14/229 (6%)
Query: 163 ALLYVIQNNLLYISASNLDAATSQVTYQLKILTTAIFA-IILLKKKISKIQWISLVILVV 221
L + LL+++ A+ + + L L TA+ A ++LL +++S +Q + +++ +
Sbjct: 77 LLGLALPFLLLFLALKYTSASVASLIIGLLPLFTALLAVLLLLGERLSLLQILGILLALA 136
Query: 222 GVALVQLSSVVEKARPADFVENRMLGFAATILACLLSGLAGVYFEMILKGSDVSIWMRNV 281
GV L+ L +LG + A LL L + + + V++ +
Sbjct: 137 GVLLILLGGGGG-------GILSLLGLLLALAAALLWALYTALVKRLSRLGPVTL-ALLL 188
Query: 282 QLSLLSLPCAACTCFISDWDKIFQHGFFYNYTWFIVFLVLLNASGGLIVAVVVKYADNIL 341
QL L L + + + V L+ ++ L
Sbjct: 189 QLLLALLLLLLFFLSGFGAPILSRAWL-----LLLYLGVFSTGLAYLLWYYALRLLGASL 243
Query: 342 KGFATSLAIVLACVFQVYLFAFVITFQFIVGAFFVMCSVFLYSRTPSSK 390
+ L V A + V L ++ ++GA V+ V L S +
Sbjct: 244 VALLSLLEPVFAALLGVLLLGEPLSPAQLLGAALVVLGVLLASLRARRR 292
>gnl|CDD|217390 pfam03151, TPT, Triose-phosphate Transporter family. This family
includes transporters with a specificity for triose
phosphate.
Length = 149
Score = 39.9 bits (94), Expect = 6e-04
Identities = 26/143 (18%), Positives = 58/143 (40%), Gaps = 15/143 (10%)
Query: 88 LQNAIVSLSMRYARMKNKDEL-FISSTGVLMAEVVKLVVCLGLVFADEGFHVGRFINLVR 146
L+ + ++ + + L + + +V L + EGF +G+FI
Sbjct: 14 LRLILSQKLLKKKKGTKLNVLELLYYLSPVAF-----IVLLPGLLFSEGFKLGKFIL-KF 67
Query: 147 AHTIQNPLDTLKVGVPALLYVIQNNLLYISASNLDAATSQVTYQ----LKILTTAIFAII 202
++ L + + +L + N +SA L TS +T +K + + ++I
Sbjct: 68 FGDLKTSRYVLLLLLSGVLAFLYN----LSAFGLLGRTSPLTSSVAGTVKRVVVIVLSVI 123
Query: 203 LLKKKISKIQWISLVILVVGVAL 225
+ ++ + + L I ++GV L
Sbjct: 124 IFGDPVTFLNILGLAIAILGVVL 146
Score = 28.7 bits (65), Expect = 3.3
Identities = 31/150 (20%), Positives = 52/150 (34%), Gaps = 12/150 (8%)
Query: 247 GFAATILACLLSGLAGVYFEMILKGSDVSIWMRNVQLSLLSLPCAACTC----FISDWDK 302
GF + A L L + + +LK + L LS P A S+ K
Sbjct: 1 GFILALAASALFALRLILSQKLLKKKKGTKLNVLELLYYLS-PVAFIVLLPGLLFSEGFK 59
Query: 303 IFQHGFFYNYTWFIVFLVLLNASGGLI-------VAVVVKYADNILKGFATSLAIVLACV 355
+ + + VLL G++ ++ + A ++ V+ V
Sbjct: 60 LGKFILKFFGDLKTSRYVLLLLLSGVLAFLYNLSAFGLLGRTSPLTSSVAGTVKRVVVIV 119
Query: 356 FQVYLFAFVITFQFIVGAFFVMCSVFLYSR 385
V +F +TF I+G + V LYS
Sbjct: 120 LSVIIFGDPVTFLNILGLAIAILGVVLYSY 149
>gnl|CDD|216178 pfam00892, EamA, EamA-like transporter family. This family
includes many hypothetical membrane proteins of unknown
function. Many of the proteins contain two copies of the
aligned region. The family used to be known as DUF6.
Length = 126
Score = 36.8 bits (86), Expect = 0.004
Identities = 14/60 (23%), Positives = 34/60 (56%)
Query: 167 VIQNNLLYISASNLDAATSQVTYQLKILTTAIFAIILLKKKISKIQWISLVILVVGVALV 226
+ L + + + A+ + V L + T I +++LL +K++ Q + +V++++GV L+
Sbjct: 65 ALGYLLYFYALKYVSASNASVITSLSPVFTLILSVLLLGEKLTLKQLLGIVLILLGVLLI 124
>gnl|CDD|222207 pfam13536, EmrE, Multidrug resistance efflux transporter. This is
a membrane protein family acting as a multidrug
resistance efflux transporter.
Length = 112
Score = 35.7 bits (83), Expect = 0.007
Identities = 12/59 (20%), Positives = 26/59 (44%)
Query: 172 LLYISASNLDAATSQVTYQLKILTTAIFAIILLKKKISKIQWISLVILVVGVALVQLSS 230
L A L + A+ +L K+++ K + ++ I++ GV L+Q++
Sbjct: 49 ALLCLALQYGPGWVVAITALTPVFAALLGRLLFKQRLPKRELLASAIILAGVVLMQVTE 107
>gnl|CDD|224987 COG2076, EmrE, Membrane transporters of cations and cationic drugs
[Inorganic ion transport and metabolism].
Length = 106
Score = 34.8 bits (81), Expect = 0.012
Identities = 11/38 (28%), Positives = 24/38 (63%)
Query: 193 ILTTAIFAIILLKKKISKIQWISLVILVVGVALVQLSS 230
I+ TA+ ++L + +S I+ + L +++ GV ++L S
Sbjct: 68 IVGTALVGVLLFGESLSLIKLLGLALILAGVIGLKLGS 105
>gnl|CDD|225510 COG2962, RarD, Predicted permeases [General function prediction
only].
Length = 293
Score = 31.8 bits (73), Expect = 0.51
Identities = 17/60 (28%), Positives = 33/60 (55%), Gaps = 7/60 (11%)
Query: 170 NNLLYISASN----LDAATSQVTYQLKILTTAIFAIILLKKKISKIQWISLVILVVGVAL 225
N L+I A N L+A+ + Y + L + + LK+++S++QWI++ + GV +
Sbjct: 85 NWWLFIWAVNNGHVLEAS---LGYFINPLVNVLLGRLFLKERLSRLQWIAVGLAAAGVLI 141
>gnl|CDD|240371 PTZ00343, PTZ00343, triose or hexose phosphate/phosphate
translocator; Provisional.
Length = 350
Score = 32.0 bits (73), Expect = 0.53
Identities = 15/38 (39%), Positives = 26/38 (68%), Gaps = 3/38 (7%)
Query: 196 TAIFAIILLKKKISKIQWISLVILVVGVALVQLSSVVE 233
TA+ +I+ LK+ ++ ++SL+ +V GVA L+SV E
Sbjct: 154 TALLSILFLKQFLNLYAYLSLIPIVGGVA---LASVKE 188
>gnl|CDD|233123 TIGR00770, Dcu, anaerobic c4-dicarboxylate membrane transporter
family protein. These proteins are members of th
C4-Dicarboxylate Uptake (Dcu) Family (TC 2.A.13). Most
proteins in this family have 12 GES predicted
transmembrane regions; however one member has 10
experimentally determined transmembrane regions with
both the N- and C-termini localized to the periplasm.
The two Escherichia coli proteins, DcuA and DcuB,
transport aspartate, malate, fumarate and succinate, and
function as antiporters with any two of these
substrates. Since DcuA is encoded in an operon with the
gene for aspartase, and DcuB is encoded in an operon
with the gene for fumarase, their physiological
functions may be to catalyze aspartate:fumarate and
fumarate:malate exchange during the anaerobic
utilization of aspartate and fumarate, respectively
[Transport and binding proteins, Carbohydrates, organic
alcohols, and acids].
Length = 430
Score = 32.0 bits (73), Expect = 0.59
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 203 LLKKKISKIQWISLVILVVGVALVQLSSVVEKARPADFVENRMLGFAATILACLLS 258
+K+ SK +S+ I + GV V L + RP FV +LG I+ +LS
Sbjct: 211 KKEKETSKSAKLSVWIFLGGVVAVVLYAAAISKRPG-FVGKPILGMDHAIVMFMLS 265
>gnl|CDD|129898 TIGR00817, tpt, Tpt phosphate/phosphoenolpyruvate translocator.
The 6-8 TMS Triose-phosphate Transporter (TPT) Family
(TC 2.A.7.9)Functionally characterized members of the
TPT family are derived from the inner envelope membranes
of chloroplasts and nongreen plastids of plants.
However,homologues are also present in yeast.
Saccharomyces cerevisiae has three functionally
uncharacterized TPT paralogues encoded within its
genome. Under normal physiologicalconditions,
chloroplast TPTs mediate a strict antiport of
substrates, frequently exchanging an organic three
carbon compound phosphate ester for inorganic phosphate
(Pi).Normally, a triose-phosphate, 3-phosphoglycerate,
or another phosphorylated C3 compound made in the
chloroplast during photosynthesis, exits the organelle
into thecytoplasm of the plant cell in exchange for Pi.
However, experiments with reconstituted translocator in
artificial membranes indicate that transport can also
occur by achannel-like uniport mechanism with up to
10-fold higher transport rates. Channel opening may be
induced by a membrane potential of large magnitude
and/or by high substrateconcentrations. Nongreen plastid
and chloroplast carriers, such as those from maize
endosperm and root membranes, mediate transport of C3
compounds phosphorylated atcarbon atom 2, particularly
phosphenolpyruvate, in exchange for Pi. These are the
phosphoenolpyruvate:Pi antiporters (PPT). Glucose-6-P
has also been shown to be asubstrate of some plastid
translocators (GPT). The three types of proteins (TPT,
PPT and GPT) are divergent in sequence as well as
substrate specificity, but their substratespecificities
overlap [Hypothetical proteins, Conserved].
Length = 302
Score = 31.2 bits (71), Expect = 0.76
Identities = 42/208 (20%), Positives = 76/208 (36%), Gaps = 33/208 (15%)
Query: 202 ILLKKKISKIQWISLVILVVGVALVQLSSVVEKARPADFVENRMLGFAATILACLLSGLA 261
L ++ W+SL+ +V GVAL + + GF + +++ +
Sbjct: 111 FFLGQEFPSTLWLSLLPIVGGVALASDTEL----------SFNWAGFLSAMISNITFVSR 160
Query: 262 GVYFEMILKGSDVSIWMRNVQLSLLSLPCAACTCFISDWDKIFQHGFFYNY------TWF 315
++ + + + +S++SL + FI++ HGF +
Sbjct: 161 NIFSKKAMTIKSLDKTNLYAYISIMSLFLLSPPAFITEGPPFLPHGFMQAISGVNVTKIY 220
Query: 316 IVFLVLLNASGGLI----------VAVVVKYADNILKGFATSLAIVLACVFQVYLFAFVI 365
V LV V+ + N +K IV++ +F F I
Sbjct: 221 TVSLVAAMGFFHFYQQVAFMLLGRVSPLTHSVGNCMKRVVV---IVVSILF----FGTKI 273
Query: 366 TFQFIVGAFFVMCSVFLYSRTPSSKPKP 393
+ Q + G + VFLYSR + KPKP
Sbjct: 274 SPQQVFGTGIAIAGVFLYSRVKAQKPKP 301
>gnl|CDD|218861 pfam06027, DUF914, Eukaryotic protein of unknown function (DUF914).
This family consists of several hypothetical proteins
of unknown function. Some of the sequences in this
family are annotated as being putative membrane
proteins.
Length = 336
Score = 30.9 bits (70), Expect = 1.1
Identities = 35/210 (16%), Positives = 80/210 (38%), Gaps = 17/210 (8%)
Query: 193 ILTTAIFAIILLKKKISKIQWISLVILVVGVALVQLSSVVEKARPADFVENRMLGFAATI 252
I + + LK + + +VI ++GV V S V+ R A N +LG +
Sbjct: 117 IPVVLVLSWFFLKVRYRASHILGVVICILGVVCVVGSDVLAGRR-AYGGSNPVLGDILVL 175
Query: 253 LACLLSGLAGVYFEMILKGSDVSIWMRNVQLSLLSLPCAACTCFISDWD-KIFQHGFFY- 310
L ++ V E ++K + ++ L L IS IF+ Y
Sbjct: 176 AGATLYAVSNVTEEFLVKKLSRTEFL--GMLGLFG-------AIISGIQTAIFERKALYK 226
Query: 311 -NYTWFIVFLVLLNASGGLI----VAVVVKYADNILKGFATSLAIVLACVFQVYLFAFVI 365
++ W I L A + + +++K + + + + + ++LF + +
Sbjct: 227 IHWDWEIGLLFAGFALCMFLLYSLMPILIKKTSATMFNLSLLTSDFWSLLIGIFLFHYKV 286
Query: 366 TFQFIVGAFFVMCSVFLYSRTPSSKPKPPR 395
++ + + ++ + +YS + + +
Sbjct: 287 SWLYFLAFATIIIGLIIYSMKETDEAEARE 316
>gnl|CDD|227309 COG4975, GlcU, Putative glucose uptake permease [Carbohydrate
transport and metabolism].
Length = 288
Score = 30.8 bits (70), Expect = 1.2
Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 4/70 (5%)
Query: 161 VPALLYVIQNNLLYISASNLDAATSQVTYQLKILTTAIFAIILLKKKISKIQW----ISL 216
+P L++ I N + ++A + ATS QL ++ + I I+ L +K +K + I +
Sbjct: 214 IPGLIWAIGNLFMLLAAQKVGVATSFSLSQLGVIISTIGGILFLGEKKTKKEMVYVIIGI 273
Query: 217 VILVVGVALV 226
+++VVG L+
Sbjct: 274 ILIVVGAILL 283
>gnl|CDD|219181 pfam06800, Sugar_transport, Sugar transport protein. This is a
family of bacterial sugar transporters approximately 300
residues long. Members include glucose uptake proteins,
ribose transport proteins, and several putative and
hypothetical membrane proteins probably involved in
sugar transport across bacterial membranes.
Length = 268
Score = 30.3 bits (69), Expect = 1.5
Identities = 26/120 (21%), Positives = 55/120 (45%), Gaps = 17/120 (14%)
Query: 110 ISSTGVLMAEVVKLVVCLGLVFADEGFHVGRFINLVRAHTIQNPLDTLKVGVPALLYVIQ 169
+ ++ + + +V+ L+F+ + F V +T N +P L + I
Sbjct: 161 VDGLSAILPQAIGMVIG-ALIFSLKNFKV-----FFEKYTWLNI-------IPGLFWGIG 207
Query: 170 NNLLYISASNLDAATSQVTYQLKILTTAIFAIILLKKKISKIQWIS----LVILVVGVAL 225
N + ISA + AT+ QL ++ + + I L +K +K + I+ +++++VG L
Sbjct: 208 NLFMLISAQKVGVATAFSLSQLGVVISTLGGIFFLGEKKTKKEMIAVIIGIILIIVGAVL 267
>gnl|CDD|225105 COG2194, COG2194, Predicted membrane-associated, metal-dependent
hydrolase [General function prediction only].
Length = 555
Score = 30.4 bits (69), Expect = 1.8
Identities = 14/62 (22%), Positives = 26/62 (41%), Gaps = 5/62 (8%)
Query: 314 WFIVFLVLLNASGGLIVAVVVKYADNILKGFATSLAIVLACVFQVYLFAFVITFQFIVGA 373
W ++ +L LIV V+++Y L+ L +L + + + AF F +
Sbjct: 122 WLVLVGLLP---ALLIVLVIIRYYRVWLRRLWARLVSILLSL--LVILAFAAPFYKNYAS 176
Query: 374 FF 375
F
Sbjct: 177 IF 178
>gnl|CDD|225308 COG2510, COG2510, Predicted membrane protein [Function unknown].
Length = 140
Score = 29.2 bits (66), Expect = 1.8
Identities = 11/34 (32%), Positives = 21/34 (61%)
Query: 196 TAIFAIILLKKKISKIQWISLVILVVGVALVQLS 229
+ +I+ L +++S WI +V++V+G LV L
Sbjct: 107 AVLLSILFLGERLSLPTWIGIVLIVIGAILVSLR 140
>gnl|CDD|233972 TIGR02679, TIGR02679, TIGR02679 family protein. Members of this
protein belong to a conserved gene four-gene
neighborhood found sporadically in a phylogenetically
broad range of bacteria: Nocardia farcinica,
Symbiobacterium thermophilum, and Streptomyces
avermitilis (Actinobacteria), Geobacillus kaustophilus
(Firmicutes), Azoarcus sp. EbN1 and Ralstonia
solanacearum (Betaproteobacteria) [Hypothetical
proteins, Conserved].
Length = 385
Score = 30.2 bits (68), Expect = 2.1
Identities = 20/80 (25%), Positives = 33/80 (41%), Gaps = 10/80 (12%)
Query: 111 SSTGVLMAEVVKLVVCLGLVFADEGFHVGRF---------INLVRAHTIQNPLDTLKVGV 161
+ G+L+ E+ V+ L L A EG L +++P G
Sbjct: 190 ARAGLLVDELSSTVLALNLPGATEGPAHPVASAASEAGTAAYLTLRQLLRSPGAWTAAGT 249
Query: 162 PALLYVIQN-NLLYISASNL 180
P +YV++N N+L I+ L
Sbjct: 250 PGRVYVVENPNVLAIALDRL 269
>gnl|CDD|238439 cd00862, ProRS_anticodon_zinc, ProRS Prolyl-anticodon binding
domain, long version found predominantly in eukaryotes
and archaea. ProRS belongs to class II aminoacyl-tRNA
synthetases (aaRS). This alignment contains the
anticodon binding domain, which is responsible for
specificity in tRNA-binding, so that the activated amino
acid is transferred to a ribose 3' OH group of the
appropriate tRNA only, and an additional C-terminal
zinc-binding domain specific to this subfamily of aaRSs.
Length = 202
Score = 29.6 bits (67), Expect = 2.2
Identities = 20/73 (27%), Positives = 25/73 (34%), Gaps = 10/73 (13%)
Query: 144 LVRAHT---IQNPLDTLKVGVPALLYVIQNNLLYISASNLDAATSQVTYQLKILTTAIFA 200
+VR T PL L VP LL IQ +L + A + T F
Sbjct: 86 IVRRDTGEKKTVPLAELVEKVPELLDEIQEDL-------YERALEFRDATRIVDTWEEFK 138
Query: 201 IILLKKKISKIQW 213
L +K I W
Sbjct: 139 EALNEKGIVLAPW 151
>gnl|CDD|225332 COG2704, DcuB, Anaerobic C4-dicarboxylate transporter [General
function prediction only].
Length = 436
Score = 30.0 bits (68), Expect = 2.2
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 202 ILLKKKISKIQWISLVILVVGVALVQLSSVVEKARPADFVENRMLGFAATILACLLS 258
L+K++ K +S+ I + V +V L + RP FV +L I +LS
Sbjct: 216 TKLEKELPKSAKLSVWIFLGAVVVVVLYAAAPSLRPG-FVGKPLLSMTLAIQIFMLS 271
>gnl|CDD|165022 PHA02639, PHA02639, EEV host range protein; Provisional.
Length = 295
Score = 30.0 bits (67), Expect = 2.3
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 355 VFQVYLFAFVITFQFIVGAFFVMCSVFLYSRTPSS 389
+F V + +I+F FI+G ++CS L S + +S
Sbjct: 256 IFTVIILLSIISFMFILGVLSLLCSCMLKSSSKTS 290
>gnl|CDD|146751 pfam04279, IspA, Intracellular septation protein A.
Length = 176
Score = 28.6 bits (65), Expect = 4.0
Identities = 13/31 (41%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 193 ILTTAIFAIIL--LKKKISKIQWISLVILVV 221
I+ T + IL L K+ K+Q I+LV++VV
Sbjct: 30 IVATLLQLAILWILTGKVEKMQLITLVLVVV 60
>gnl|CDD|224397 COG1480, COG1480, Predicted membrane-associated HD superfamily
hydrolase [General function prediction only].
Length = 700
Score = 29.3 bits (66), Expect = 4.4
Identities = 35/188 (18%), Positives = 70/188 (37%), Gaps = 12/188 (6%)
Query: 193 ILTTAIFAIILLKKKISKIQWISLVILVVGVALVQLSSVVEKARPADFVENRML--GFAA 250
I +FA+ + K SL++L + +A++ LS ++ ++ + +L
Sbjct: 285 IFLILLFALYERRTKSPLKLRNSLLLLYLSLAILTLS-LLRIVGYFNYSASGLLVPPALG 343
Query: 251 TILACLLSGLAGVYFEMILKGSDVSI---WMRNVQLSLLSLPC----AACTCFISDWDKI 303
+L LL L F + + N +++L++L +S I
Sbjct: 344 PMLLILLVFLRIAIFSSSMIAIALLYLFGGSYNSEIALIALLSSFSALVLLRKMSRRSDI 403
Query: 304 FQHGFFYNYTWFIVFLVLLNASGGLIVAVVVKYADNILKGFATS-LAIVLACVFQVYLFA 362
+ G F ++ L L+ A + L G + L + L F+ LF
Sbjct: 404 LKSGLFLALMNMLLLLSLIFAFTLSWYDALQDAIFAFLSGLLSGILVLGLLPYFE-ALFG 462
Query: 363 FVITFQFI 370
+ TF+ +
Sbjct: 463 LLTTFRLL 470
>gnl|CDD|185328 PRK15430, PRK15430, putative chloramphenical resistance permease
RarD; Provisional.
Length = 296
Score = 28.7 bits (64), Expect = 5.9
Identities = 23/80 (28%), Positives = 44/80 (55%), Gaps = 3/80 (3%)
Query: 150 IQNPLDTLKVGVPALLYVIQNNLLYI-SASNLDAATSQVTYQLKILTTAIFAIILLKKKI 208
IQ P + V A+L + N LL+I + +N + + Y + L + +I L ++
Sbjct: 67 IQTPQKIFMLAVSAVL-IGGNWLLFIWAVNNHHMLEASLGYFINPLVNIVLGMIFLGERF 125
Query: 209 SKIQWISLVILVVGVALVQL 228
++QW+++++ + GV LVQL
Sbjct: 126 RRMQWLAVILAICGV-LVQL 144
>gnl|CDD|234580 PRK00025, lpxB, lipid-A-disaccharide synthase; Reviewed.
Length = 380
Score = 28.5 bits (65), Expect = 6.7
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 6/40 (15%)
Query: 187 VTYQLKILTTAIFAIILLKKKISKIQWISLVILVVGVALV 226
V Y++ LT F I K++ K+ ++SL L+ G LV
Sbjct: 285 VGYKVSPLT---FWIA---KRLVKVPYVSLPNLLAGRELV 318
>gnl|CDD|234704 PRK00259, PRK00259, intracellular septation protein A; Reviewed.
Length = 179
Score = 27.5 bits (62), Expect = 8.6
Identities = 13/31 (41%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 193 ILTTAIFAII--LLKKKISKIQWISLVILVV 221
I+ T I I + +K+ K+Q ISLV++VV
Sbjct: 30 IVATVIQLAISWIRYRKVEKMQLISLVVVVV 60
>gnl|CDD|129771 TIGR00688, rarD, rarD protein. This uncharacterized protein is
predicted to have many membrane-spanning domains
[Transport and binding proteins, Unknown substrate].
Length = 256
Score = 27.8 bits (62), Expect = 9.2
Identities = 22/79 (27%), Positives = 38/79 (48%), Gaps = 2/79 (2%)
Query: 146 RAHTIQNPLDTLKVGVPALLYVIQNNLLYISASNLDAATS-QVTYQLKILTTAIFAIILL 204
R IQ L + + LL N L+I A N ++ + Y + L + L
Sbjct: 60 RLKRIQKRPLILSLLLCGLLIGF-NWWLFIWAVNNGSSLEVSLGYLINPLVMVALGRVFL 118
Query: 205 KKKISKIQWISLVILVVGV 223
K++IS+ Q+I+++I +GV
Sbjct: 119 KERISRFQFIAVIIATLGV 137
>gnl|CDD|223834 COG0763, LpxB, Lipid A disaccharide synthetase [Cell envelope
biogenesis, outer membrane].
Length = 381
Score = 28.0 bits (63), Expect = 9.9
Identities = 11/40 (27%), Positives = 22/40 (55%), Gaps = 6/40 (15%)
Query: 187 VTYQLKILTTAIFAIILLKKKISKIQWISLVILVVGVALV 226
V Y++K +T I K+ + K+ ++SL ++ G +V
Sbjct: 288 VAYKVKPITYFI-----AKRLV-KLPYVSLPNILAGREIV 321
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
0.327 0.139 0.407
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,859,061
Number of extensions: 1937968
Number of successful extensions: 3226
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3168
Number of HSP's successfully gapped: 205
Length of query: 400
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 301
Effective length of database: 6,546,556
Effective search space: 1970513356
Effective search space used: 1970513356
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 60 (26.8 bits)