RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15865
(156 letters)
>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 = 52.0 bits (125), Expect = 1e-08
Identities = 27/82 (32%), Positives = 39/82 (47%), Gaps = 7/82 (8%)
Query: 6 VLVLTYVAEITQPHLRGMLSATASMTTIFG-------TVSQLFLGSFLHWRSAAILNLLF 58
LV Y++EI LRG L++ + FG ++ L + L WR L L+
Sbjct: 146 ALVPMYLSEIAPKALRGALTSLYQLAITFGILVAYGFGSGKVSLNNTLGWRIPLGLQLIP 205
Query: 59 PILALCALYFIPESPHWLISKY 80
L L+F+PESP WL+ K
Sbjct: 206 AGLLFLGLFFLPESPRWLVGKG 227
>gnl|CDD|215702 pfam00083, Sugar_tr, Sugar (and other) transporter.
Length = 449
Score = 45.7 bits (109), Expect = 2e-06
Identities = 28/81 (34%), Positives = 38/81 (46%), Gaps = 7/81 (8%)
Query: 6 VLVLTYVAEITQPHLRGMLSATASMTTIFGT-VSQLF------LGSFLHWRSAAILNLLF 58
VLV Y++EI LRG L + + FG V+ + + WR L +
Sbjct: 120 VLVPMYISEIAPKKLRGALGSLYQLGITFGILVAAIIGLGLNKYSNSDGWRIPLGLQFVP 179
Query: 59 PILALCALYFIPESPHWLISK 79
IL L L F+PESP WL+ K
Sbjct: 180 AILLLIGLLFLPESPRWLVLK 200
>gnl|CDD|182225 PRK10077, xylE, D-xylose transporter XylE; Provisional.
Length = 479
Score = 42.4 bits (100), Expect = 3e-05
Identities = 30/85 (35%), Positives = 42/85 (49%), Gaps = 20/85 (23%)
Query: 11 YVAEITQPHLRGMLSATASMTTIFGTVSQLFLGSFLH------------WR----SAAIL 54
Y+AEI H+RG L + IFG + F+ F+ WR S AI
Sbjct: 144 YIAEIAPAHIRGKLVSFNQFAIIFGQLVVYFVNYFIARSGDASWLNTDGWRYMFASEAIP 203
Query: 55 NLLFPILALCALYFIPESPHWLISK 79
LLF +L LYF+PE+P +L+S+
Sbjct: 204 ALLFLML----LYFVPETPRYLMSR 224
>gnl|CDD|233176 TIGR00898, 2A0119, cation transport protein. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 505
Score = 31.1 bits (71), Expect = 0.22
Identities = 19/75 (25%), Positives = 29/75 (38%), Gaps = 1/75 (1%)
Query: 6 VLVLTYVAEITQPHLRGMLSATASMTTIFGTVSQLFLGSFL-HWRSAAILNLLFPILALC 64
V + E R ++ + G V + F+ WR + L L
Sbjct: 199 VQAVVLNTEFLPKKQRAIVGTLIQVFFSLGLVLLPLVAYFIPDWRWLQLAVSLPTFLFFL 258
Query: 65 ALYFIPESPHWLISK 79
+F+PESP WLIS+
Sbjct: 259 LSWFVPESPRWLISQ 273
Score = 28.8 bits (65), Expect = 1.3
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 1/57 (1%)
Query: 40 LFLGSFLHWRSAAILNLLFPILALCALYFIPESPHWLISKYLPIGLSALATSAKNML 96
L L L R +LL +AL L F+P ++L + +G TSA M+
Sbjct: 376 LLLIDRLGRRYTMAASLLLAGVALLLLLFVPVDLYFLRTALAVLG-KFGITSAFQMV 431
>gnl|CDD|218756 pfam05797, Rep_4, Yeast trans-acting factor (REP1/REP2). This
family consists of the yeast trans-acting factor B and C
(REP1 and 2) proteins. The yeast plasmid stability
system consists of two plasmid-coded proteins, Rep1 and
Rep2, and a cis-acting locus, STB. The Rep proteins show
both self- and cross-interactions in vivo and in vitro,
and bind to the STB DNA with assistance from host
factor(s). Within the yeast nucleus, the Rep1 and Rep2
proteins tightly associate with STB-containing plasmids
into well organised plasmid foci that form a cohesive
unit in partitioning. It is generally accepted that the
protein-protein and DNA-protein interactions engendered
by the Rep-STB system are central to plasmid
partitioning. Point mutations in Rep1 that knock out
interaction with Rep2 or with STB simultaneously block
the ability of these Rep1 variants to support plasmid
stability.
Length = 337
Score = 30.2 bits (68), Expect = 0.41
Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 7/51 (13%)
Query: 92 AKNMLLFSYGTT------LGLPTIAIPYLSYSIKAIPYQTAGSGSLEKPAP 136
+ N L+ G+ P +AI Y+ Y I +PY LE P P
Sbjct: 26 SNNTLITPRGSVEVPENYAEYPILAIFYVKYLINKLPYDVIRK-DLEWPEP 75
>gnl|CDD|233172 TIGR00891, 2A0112, putative sialic acid transporter. [Transport
and binding proteins, Carbohydrates, organic alcohols,
and acids].
Length = 405
Score = 28.7 bits (64), Expect = 1.3
Identities = 17/72 (23%), Positives = 27/72 (37%), Gaps = 6/72 (8%)
Query: 10 TYVAEITQPHLRGMLS----ATASMTTIFGTVSQLFLGSF--LHWRSAAILNLLFPILAL 63
YV E HLR S + ++ + + WR+ +++L I AL
Sbjct: 123 AYVIESWPKHLRNKASGLLISGYAVGAVVAAQVYSLVVPVWGDGWRALFFISILPIIFAL 182
Query: 64 CALYFIPESPHW 75
IPE+ W
Sbjct: 183 WLRKNIPEAEDW 194
>gnl|CDD|233166 TIGR00880, 2_A_01_02, Multidrug resistance protein.
Length = 141
Score = 27.6 bits (62), Expect = 1.6
Identities = 19/74 (25%), Positives = 31/74 (41%), Gaps = 4/74 (5%)
Query: 2 AAPLVLVLTYVAEITQPHLR----GMLSATASMTTIFGTVSQLFLGSFLHWRSAAILNLL 57
A LV +A+I P R G++SA ++ + G L FL WR+ + +
Sbjct: 66 AFALVAGAALIADIYPPEERGVALGLMSAGIALGPLLGPPLGGVLAQFLGWRAPFLFLAI 125
Query: 58 FPILALCALYFIPE 71
+ A L F+
Sbjct: 126 LALAAFILLAFLLP 139
>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 = 27.7 bits (62), Expect = 2.5
Identities = 16/74 (21%), Positives = 23/74 (31%), Gaps = 4/74 (5%)
Query: 1 MAAPLVLVLTYVAEITQPHLRGMLSATASMTTIFGTVSQLFLGSFLH----WRSAAILNL 56
A +AE P RG S G + LG L WR ++
Sbjct: 101 GGALYPAAAALIAEWFPPKERGRALGLFSAGFGLGALLGPLLGGLLAESLGWRWLFLILA 160
Query: 57 LFPILALCALYFIP 70
+ +L L F+
Sbjct: 161 ILGLLLALLLLFLL 174
>gnl|CDD|215180 PLN02316, PLN02316, synthase/transferase.
Length = 1036
Score = 27.5 bits (61), Expect = 3.5
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 142 DGPPKNALTTNNNG 155
DGPP NA +NNG
Sbjct: 397 DGPPGNARNYDNNG 410
>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 = 27.2 bits (60), Expect = 4.5
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 45 FLHWRSAAILNLLFPILALCALYFIPESPHWLI 77
F WR I+ + A+ AL F+PESP + +
Sbjct: 330 FHSWRVFVIVCAFPCVFAIGALTFMPESPRFFL 362
>gnl|CDD|236610 PRK09669, PRK09669, putative symporter YagG; Provisional.
Length = 444
Score = 26.6 bits (59), Expect = 7.0
Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 2/62 (3%)
Query: 17 QPHLRGMLSATASMTTIFGTV-SQLFLGSFLHWRSAAILNLLFPILALCALYFIPESPHW 75
+P L + T + +FG + S+ LG F R+ + F IL+ ++FIP S W
Sbjct: 262 RPDLATLFLVTGMIAGLFGALLSERLLGKFDRVRAFKWTIVAFVILSA-LIFFIPPSNVW 320
Query: 76 LI 77
LI
Sbjct: 321 LI 322
>gnl|CDD|206649 cd01850, CDC_Septin, CDC/Septin GTPase family. Septins are a
conserved family of GTP-binding proteins associated with
diverse processes in dividing and non-dividing cells.
They were first discovered in the budding yeast S.
cerevisiae as a set of genes (CDC3, CDC10, CDC11 and
CDC12) required for normal bud morphology. Septins are
also present in metazoan cells, where they are required
for cytokinesis in some systems, and implicated in a
variety of other processes involving organization of the
cell cortex and exocytosis. In humans, 12 septin genes
generate dozens of polypeptides, many of which comprise
heterooligomeric complexes. Since septin mutants are
commonly defective in cytokinesis and formation of the
neck formation of the neck filaments/septin rings,
septins have been considered to be the primary
constituents of the neck filaments. Septins belong to
the GTPase superfamily for their conserved GTPase motifs
and enzymatic activities.
Length = 275
Score = 26.4 bits (59), Expect = 7.5
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 64 CALYFIPESPHWL 76
C LYFIP + H L
Sbjct: 116 CCLYFIPPTGHGL 128
>gnl|CDD|217050 pfam02460, Patched, Patched family. The transmembrane protein
Patched is a receptor for the morphogene Sonic Hedgehog.
This protein associates with the smoothened protein to
transduce hedgehog signals.
Length = 801
Score = 26.5 bits (59), Expect = 7.7
Identities = 23/103 (22%), Positives = 39/103 (37%), Gaps = 15/103 (14%)
Query: 23 MLSATASMTTIFGTVSQLFLGSFLHWRSAAILNLLFPILALCA----LYFI--------- 69
+L+ +T + TVS L + + +I+ + P L L ++ +
Sbjct: 251 ILAILGCLTPLMATVSAFGLLFWFGFPFNSIVCVT-PFLVLAIGVDDMFLMVHAWQRTTK 309
Query: 70 PESPHWLISKYL-PIGLSALATSAKNMLLFSYGTTLGLPTIAI 111
S + + L G S TS N+L F GT P I +
Sbjct: 310 TLSVKKRMGETLSEAGPSITITSLTNVLSFGIGTYTPTPAIQL 352
>gnl|CDD|223939 COG1007, NuoN, NADH:ubiquinone oxidoreductase subunit 2 (chain N)
[Energy production and conversion].
Length = 475
Score = 26.1 bits (58), Expect = 9.1
Identities = 18/97 (18%), Positives = 34/97 (35%), Gaps = 8/97 (8%)
Query: 23 MLSATASMTTIFGTVSQLFLGSFL--HWRSAAILNLLFPILALCALYFIPESPHWLISKY 80
+ + + L +G F+ A L +L + AL +L FI +
Sbjct: 5 LSLLLPEIILAITALVLLLVGLFIRRSRSLLAYLAVLGLLAALASLLFIAYRGSAFAGAF 64
Query: 81 LPIGLSALATSAKNMLLFSYGTTLGLPTIAIPYLSYS 117
+ L A M + +L +++PYL +
Sbjct: 65 IVDAL------ALLMKIVVLLASLAALILSLPYLERA 95
>gnl|CDD|237051 PRK12307, PRK12307, putative sialic acid transporter; Provisional.
Length = 426
Score = 26.0 bits (57), Expect = 9.8
Identities = 11/54 (20%), Positives = 22/54 (40%)
Query: 24 LSATASMTTIFGTVSQLFLGSFLHWRSAAILNLLFPILALCALYFIPESPHWLI 77
L A+ T+ G + + + + LL L + L+ IP+ + L+
Sbjct: 271 LMTAAAFGTVLGNIVWGLCADRIGLKKTFSIGLLMSFLFIFPLFRIPQDNYLLL 324
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 0.136 0.407
Gapped
Lambda K H
0.267 0.0832 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,904,883
Number of extensions: 722729
Number of successful extensions: 820
Number of sequences better than 10.0: 1
Number of HSP's gapped: 811
Number of HSP's successfully gapped: 85
Length of query: 156
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 67
Effective length of database: 6,990,096
Effective search space: 468336432
Effective search space used: 468336432
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: 55 (24.8 bits)