RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7005
(88 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 = 43.1 bits (102), Expect = 2e-06
Identities = 23/68 (33%), Positives = 34/68 (50%)
Query: 6 PKGRGIASGLVATVAYALAFATAKTFLDLHMRIGLHGVFFLYGSCSVFGLIYLYIWLPET 65
R + + F F + IG+ GVF +G +V GLI++Y +LPET
Sbjct: 414 LSLRPKGISIAVAANWLANFIVGFLFPTMLESIGVGGVFIFFGGLNVLGLIFVYFFLPET 473
Query: 66 EGKTLHEI 73
+G+TL EI
Sbjct: 474 KGRTLEEI 481
>gnl|CDD|215702 pfam00083, Sugar_tr, Sugar (and other) transporter.
Length = 449
Score = 39.6 bits (93), Expect = 4e-05
Identities = 17/69 (24%), Positives = 32/69 (46%), Gaps = 1/69 (1%)
Query: 6 PKGRGIASGLVATVAYALAFATAKTFLDLHMRIGLHGVFFLYGSCSVFGLIYLYIWLPET 65
R A + + F F + IG VF ++ V +++++ ++PET
Sbjct: 379 LGVRPKAMAIATAANWLANFLIGFLFPIITGAIGG-YVFLVFAGLLVLFILFVFFFVPET 437
Query: 66 EGKTLHEIE 74
+G+TL EI+
Sbjct: 438 KGRTLEEID 446
>gnl|CDD|182225 PRK10077, xylE, D-xylose transporter XylE; Provisional.
Length = 479
Score = 36.6 bits (85), Expect = 5e-04
Identities = 13/40 (32%), Positives = 27/40 (67%)
Query: 44 FFLYGSCSVFGLIYLYIWLPETEGKTLHEIELHFKQKKSK 83
+++YG V ++++ ++PET+GKTL E+E ++ + K
Sbjct: 439 YWIYGCMGVLAALFMWKFVPETKGKTLEEMEALWEPETKK 478
>gnl|CDD|213283 cd05915, ttLC_FACS_like, Fatty acyl-CoA synthetases similar to
LC-FACS from Thermus thermophiles. This family includes
fatty acyl-CoA synthetases that can activate
medium-chain to long-chain fatty acids. They catalyze
the ATP-dependent acylation of fatty acids in a two-step
reaction. The carboxylate substrate first reacts with
ATP to form an acyl-adenylate intermediate, which then
reacts with CoA to produce an acyl-CoA ester. Fatty
acyl-CoA synthetases are responsible for fatty acid
degradation as well as physiological regulation of
cellular functions via the production of fatty acyl-CoA
esters. The fatty acyl-CoA synthetase from Thermus
thermophiles in this family has been shown to catalyze
the long-chain fatty acid, myristoyl acid, while another
member in this family, the AlkK protein identified in
Pseudomonas oleovorans, targets medium chain fatty
acids. This family also includes an uncharacterized
subgroup of FACS.
Length = 509
Score = 27.8 bits (61), Expect = 0.60
Identities = 7/38 (18%), Positives = 10/38 (26%), Gaps = 2/38 (5%)
Query: 37 RIGLHGVFFLYGSCSVFGLIYLYIWLPETEGKTLHEIE 74
V YG ++ E +L E E
Sbjct: 291 ERMGVEVRQGYGLTETSPVVVQNFVKSHLE--SLSEEE 326
>gnl|CDD|129965 TIGR00887, 2A0109, phosphate:H+ symporter. This model represents
the phosphate uptake symporter subfamily of the major
facilitator superfamily (pfam00083) [Transport and
binding proteins, Anions].
Length = 502
Score = 27.8 bits (62), Expect = 0.61
Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 5/66 (7%)
Query: 12 ASGLVATVAYALAFATAKTFLDLH----MRIGLHGVFFLYGSCSVFGLIYLYIWLPETEG 67
ASG + F D I + V ++ G+++ + +PET+G
Sbjct: 435 ASGKAGAIIGQFGFLYLAQHGDPTKGYPTGIWMGHVLEIFALFMFLGILFTLL-IPETKG 493
Query: 68 KTLHEI 73
K+L E+
Sbjct: 494 KSLEEL 499
>gnl|CDD|223800 COG0728, MviN, Uncharacterized membrane protein, putative virulence
factor [General function prediction only].
Length = 518
Score = 27.6 bits (62), Expect = 0.67
Identities = 9/48 (18%), Positives = 18/48 (37%), Gaps = 2/48 (4%)
Query: 11 IASGLVATVAYALAFATAKTFLDLHMRIGLHGVFFLYGSCSVFGLIYL 58
+AS ++A AL + +L + L + L + +Y
Sbjct: 456 LASAIMAAALLALLHLAQREWLLGGL--LLIRLGVLLLLVLLGAGVYF 501
>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 = 26.5 bits (59), Expect = 1.8
Identities = 14/56 (25%), Positives = 21/56 (37%)
Query: 6 PKGRGIASGLVATVAYALAFATAKTFLDLHMRIGLHGVFFLYGSCSVFGLIYLYIW 61
P+ RG ASGL T L G GVF + + ++ + L +
Sbjct: 296 PEARGTASGLFNTFGSLGGALGPLLAGLLLDTGGYGGVFLILAALALLAALLLLLL 351
>gnl|CDD|217521 pfam03378, CAS_CSE1, CAS/CSE protein, C-terminus. Mammalian
cellular apoptosis susceptibility (CAS) proteins are
homologous to the yeast chromosome-segregation protein,
CSE1. This family aligns the C-terminal halves
(approximately). CAS is involved in both cellular
apoptosis and proliferation. Apoptosis is inhibited in
CAS-depleted cells, while the expression of CAS
correlates to the degree of cellular proliferation. Like
CSE1, it is essential for the mitotic checkpoint in the
cell cycle (CAS depletion blocks the cell in the G2
phase), and has been shown to be associated with the
microtubule network and the mitotic spindle, as is the
protein MEK, which is thought to regulate the
intracellular localisation (predominantly nuclear vs.
predominantly cytosolic) of CAS. In the nucleus, CAS
acts as a nuclear transport factor in the importin
pathway. The importin pathway mediates the nuclear
transport of several proteins that are necessary for
mitosis and further progression. CAS is therefore
thought to affect the cell cycle through its effect on
the nuclear transport of these proteins. Since apoptosis
also requires the nuclear import of several proteins
(such as P53 and transcription factors), it has been
suggested that CAS also enables apoptosis by
facilitating the nuclear import of at least a subset of
these essential proteins.
Length = 435
Score = 26.1 bits (58), Expect = 2.3
Identities = 11/16 (68%), Positives = 13/16 (81%)
Query: 52 VFGLIYLYIWLPETEG 67
VFG+IYL I LPET+
Sbjct: 290 VFGMIYLNIILPETQK 305
>gnl|CDD|215839 pfam00288, GHMP_kinases_N, GHMP kinases N terminal domain. This
family includes homoserine kinases, galactokinases and
mevalonate kinases.
Length = 67
Score = 24.0 bits (53), Expect = 5.6
Identities = 8/22 (36%), Positives = 10/22 (45%), Gaps = 2/22 (9%)
Query: 5 IPKGRGIASG--LVATVAYALA 24
IP G G+ S L + AL
Sbjct: 8 IPLGAGLGSSAALAVALLLALN 29
>gnl|CDD|233149 TIGR00845, caca, sodium/calcium exchanger 1. The Ca2+:Cation
Antiporter (CaCA) Family (TC 2.A.19)Proteins of the CaCA
family are found ubiquitously, having been identified in
animals, plants, yeast, archaea and widely divergent
bacteria.All of the characterized animal proteins
catalyze Ca2+:Na+ exchange although some also transport
K+. The NCX1 plasma membrane protein exchanges 3 Na+ for
1 Ca2+. The E. coli ChaA protein catalyzes Ca2+:H+
antiport but may also catalyze Na+:H+ antiport. All
remaining well-characterized members of the family
catalyze Ca2+:H+ exchange.This model is specific for the
eukaryotic sodium ion/calcium ion exchangers of the Caca
family [Transport and binding proteins, Other].
Length = 928
Score = 24.8 bits (54), Expect = 7.9
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 37 RIGLHGVFFLYGSCSVFGLIYLYIWL 62
+I VFF+ + SVF ++LY+ L
Sbjct: 194 KIKHLRVFFVTAAWSVFAYVWLYLIL 219
>gnl|CDD|233184 TIGR00917, 2A060601, Niemann-Pick C type protein family. The model
describes Niemann-Pick C type protein in eukaryotes. The
defective protein has been associated with Niemann-Pick
disease which is described in humans as autosomal
recessive lipidosis. It is characterized by the lysosomal
accumulation of unestrified cholesterol. It is an
integral membrane protein, which indicates that this
protein is most likely involved in cholesterol transport
or acts as some component of cholesterol homeostasis
[Transport and binding proteins, Other].
Length = 1204
Score = 24.4 bits (53), Expect = 9.8
Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 8/40 (20%)
Query: 23 LAFATAKTFLDLHMRI--------GLHGVFFLYGSCSVFG 54
L F+ ++ F + R+ LHG+ FL S G
Sbjct: 1165 LGFSKSEIFQVYYFRMYLAIVLLGALHGLVFLPVLLSYIG 1204
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 0.142 0.432
Gapped
Lambda K H
0.267 0.0831 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,467,870
Number of extensions: 368456
Number of successful extensions: 634
Number of sequences better than 10.0: 1
Number of HSP's gapped: 632
Number of HSP's successfully gapped: 54
Length of query: 88
Length of database: 10,937,602
Length adjustment: 56
Effective length of query: 32
Effective length of database: 8,453,778
Effective search space: 270520896
Effective search space used: 270520896
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: 53 (24.0 bits)