RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14635
(162 letters)
>gnl|CDD|233185 TIGR00918, 2A060602, The Eukaryotic (Putative) Sterol Transporter
(EST) Family.
Length = 1145
Score = 78.8 bits (194), Expect = 1e-17
Identities = 39/84 (46%), Positives = 58/84 (69%), Gaps = 5/84 (5%)
Query: 1 MFLITKTFAKYTSKNQFDSVKLNECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALR 60
+FL+ F++ T +N + E TG L++TG S++L+S+ AFF A+LIPIPALR
Sbjct: 475 VFLLAHAFSE-TGQN----IPFEERTGECLKRTGASVVLTSISNVTAFFMAALIPIPALR 529
Query: 61 VFNLQLAILILFNMFVLLLVYPAI 84
F+LQ AI+++FN +LLV+PAI
Sbjct: 530 AFSLQAAIVVVFNFAAVLLVFPAI 553
Score = 38.7 bits (90), Expect = 8e-04
Identities = 12/52 (23%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 110 EDEHTSSACKLKSYSEFSCRYLARQH-ARLITRPGVKMIVVFGFIGVLIASV 160
+ E + +AC + ++ A +H A + + K++V+F F+ +L S+
Sbjct: 653 QFEDSKAACLSLPCARWTLATFAEKHYAPFLLQSWAKVVVIFLFLALLGLSL 704
>gnl|CDD|192997 pfam12349, Sterol-sensing, Sterol-sensing domain of SREBP
cleavage-activation. Sterol regulatory element-binding
proteins (SREBPs) are membrane-bound transcription
factors that promote lipid synthesis in animal cells.
They are embedded in the membranes of the endoplasmic
reticulum (ER) in a helical hairpin orientation and are
released from the ER by a two-step proteolytic process.
Proteolysis begins when the SREBPs are cleaved at
Site-1, which is located at a leucine residue in the
middle of the hydrophobic loop in the lumen of the ER.
Upon proteolytic processing SREBP can activate the
expression of genes involved in cholesterol biosynthesis
and uptake. SCAP stimulates cleavage of SREBPs via
fusion of the their two C-termini. This domain is the
transmembrane region that traverses the membrane eight
times and is the sterol-sensing domain of the cleavage
protein. WD40 domains are found towards the C-terminus.
Length = 153
Score = 52.2 bits (126), Expect = 4e-09
Identities = 23/84 (27%), Positives = 45/84 (53%), Gaps = 5/84 (5%)
Query: 1 MFLITKTFAKYTSKNQFDSVKLNECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALR 60
MFL+ + T ++ ++ E L + G SI L+S+ + +AF +L P+PA++
Sbjct: 54 MFLLVHAV-QRTPRSLDVEERIAEA----LGEVGPSITLTSLTELLAFLIGALTPMPAVQ 108
Query: 61 VFNLQLAILILFNMFVLLLVYPAI 84
F L A+ +LF+ + + + A+
Sbjct: 109 EFCLFAAVAVLFDFLLQITFFVAV 132
>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 = 51.0 bits (122), Expect = 4e-08
Identities = 35/146 (23%), Positives = 65/146 (44%), Gaps = 25/146 (17%)
Query: 27 GIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIEC 86
G L + G SI L+S+ +S+AFF +L +PA+R F+L A L +F F+L I
Sbjct: 685 GRALGEVGPSITLASLSESLAFFLGALSKMPAVRAFSL-FAGLAVFIDFLL-----QITA 738
Query: 87 WVGSAAPKDQSLLGEDLMTSDE-----------EEDEHTSSACKLKSYSEFSCRYLARQH 135
+V +LL D +++ + ++ + R+ +
Sbjct: 739 FV--------ALLVLDFKRTEDNRVDCFPCIKGSKSSISAEKGSGQRKEGLLTRFFKEVY 790
Query: 136 ARLITRPGVKMIVVFGFIGVLIASVS 161
A + VK++V+ F G+L+ ++
Sbjct: 791 APFLLHWIVKIVVIAFFFGLLMFGIA 816
>gnl|CDD|233187 TIGR00921, 2A067, The (Largely Archaeal Putative)
Hydrophobe/Amphiphile Efflux-3 (HAE3) Family.
Characterized members of the RND superfamily all
probably catalyze substrate efflux via an H+ antiport
mechanism. These proteins are found ubiquitously in
bacteria, archaea and eukaryotes. They fall into seven
phylogenetic families, this family (2.A.6.7) consists of
uncharacterised putative transporters, largely in the
Archaea [Transport and binding proteins, Unknown
substrate].
Length = 719
Score = 37.9 bits (88), Expect = 0.001
Identities = 17/55 (30%), Positives = 29/55 (52%)
Query: 30 LRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
+ +TG I+ S + + F S L P +R F L I +L ++ L+V+PA+
Sbjct: 662 MERTGPGILFSGLTTAGGFLSLLLSHFPIMRNFGLVQGIGVLSSLTAALVVFPAL 716
>gnl|CDD|225272 COG2409, COG2409, Predicted drug exporters of the RND superfamily
[General function prediction only].
Length = 937
Score = 37.0 bits (86), Expect = 0.003
Identities = 13/58 (22%), Positives = 25/58 (43%)
Query: 27 GIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
G R G ++ S + ++A S +P L+ + AI + + L + PA+
Sbjct: 282 GTAYRTAGKTVAFSGLTVAIALLGLSFARLPFLKTLGIAAAIGVAVAVLAALTLLPAL 339
>gnl|CDD|169981 PRK09577, PRK09577, multidrug efflux protein; Reviewed.
Length = 1032
Score = 34.4 bits (79), Expect = 0.021
Identities = 19/51 (37%), Positives = 32/51 (62%), Gaps = 2/51 (3%)
Query: 34 GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
G++++L+SV +AFF ++ I R F L LA+ I F+ F+ L + PA+
Sbjct: 443 GITVVLTSVFVPMAFFGGAVGNI--YRQFALSLAVSIGFSAFLALSLTPAL 491
>gnl|CDD|223964 COG1033, COG1033, Predicted exporters of the RND superfamily
[General function prediction only].
Length = 727
Score = 33.8 bits (78), Expect = 0.031
Identities = 15/57 (26%), Positives = 30/57 (52%)
Query: 28 IVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
+ +TG +I+ S++ ++ F + P P + F L I IL ++ L++ PA+
Sbjct: 661 TTVERTGKAILASALTTAIGFLALIFSPFPIISNFGLLTVIGILLSLLASLVLLPAL 717
Score = 29.6 bits (67), Expect = 0.74
Identities = 15/55 (27%), Positives = 31/55 (56%)
Query: 30 LRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
++ TG +++++++ + F S IPA++ F + L+I I+ L V PA+
Sbjct: 292 IKHTGPAVLIAALTTAAGFLSLLTSSIPAIKEFGILLSIGIILAFLSSLTVLPAL 346
>gnl|CDD|192537 pfam10329, DUF2417, Region of unknown function (DUF2417). This is
a region of a family of proteins conserved in fungi some
of whose members also have the Abhydrolase_1, pfam00561,
domain in their sequence. The function of this region is
not known.
Length = 227
Score = 29.6 bits (67), Expect = 0.61
Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 9/62 (14%)
Query: 33 TGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI---ECWVG 89
T L+I + + + FFS +P RV LA+L+L ++ ++L V P + E WVG
Sbjct: 75 TLLAIGANLIT--LWFFS---VPSKLERVLGYVLAVLLLIDLIIILAV-PYLRHEEGWVG 128
Query: 90 SA 91
A
Sbjct: 129 IA 130
>gnl|CDD|227320 COG4987, CydC, ABC-type transport system involved in cytochrome bd
biosynthesis, fused ATPase and permease components
[Energy production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 573
Score = 28.8 bits (65), Expect = 1.2
Identities = 10/39 (25%), Positives = 19/39 (48%)
Query: 46 VAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
V + L F++ LA+L+ + +LLL+ P +
Sbjct: 140 VVALVLIAVVTIGLSFFSIPLALLLGLILLLLLLIIPTL 178
>gnl|CDD|233182 TIGR00915, 2A0602, The (Largely Gram-negative Bacterial)
Hydrophobe/Amphiphile Efflux-1 (HAE1) Family. Proteins
scoring above the trusted cutoff (1000) form a tight
clade within the RND (Resistance-Nodulation-Cell
Division) superfamily. Proteins scoring greater than the
noise cutoff (100) appear to form a larger clade,
cleanly separated from more distant homologs that
include cadmium/zinc/cobalt resistance transporters.
This family is one of several subfamilies within the
scope of Pfam model pfam00873 [Cellular processes, Toxin
production and resistance, Transport and binding
proteins, Unknown substrate].
Length = 1044
Score = 27.8 bits (62), Expect = 3.7
Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 34 GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
G++++LS+V +AFF S I R F++ + + ++ V L++ PA+
Sbjct: 444 GIAMVLSAVFVPMAFFGGSTGAI--YRQFSITIVSAMALSVLVALILTPAL 492
>gnl|CDD|187839 cd09708, Csf4_U, CRISPR/Cas system-associated DinG family helicase
Csf4. CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
DinG family DNA helicase.
Length = 632
Score = 27.2 bits (60), Expect = 5.2
Identities = 13/43 (30%), Positives = 20/43 (46%)
Query: 96 QSLLGEDLMTSDEEEDEHTSSACKLKSYSEFSCRYLARQHARL 138
+L +D +T DEE+ +S + + Y R LA H L
Sbjct: 181 ATLNPQDFVTEDEEDKRWVTSLVESREYYARKSRILACTHTML 223
>gnl|CDD|129913 TIGR00833, actII, Transport protein. The
Resistance-Nodulation-Cell Division (RND) Superfamily-
MmpL sub family (TC 2.A.6.5)Characterized members of the
RND superfamily all probably catalyze substrate efflux
via an H+ antiport mechanism. These proteins are found
ubiquitously in bacteria, archaea and eukaryotes. This
sub-family includes the S. coelicolor ActII3 protein,
which may play a role in drug resistance, and the M.
tuberculosis MmpL7 protein, which catalyzes export of an
outer membrane lipid, phthiocerol dimycocerosate
[Transport and binding proteins, Unknown substrate].
Length = 910
Score = 26.5 bits (58), Expect = 8.1
Identities = 16/55 (29%), Positives = 32/55 (58%)
Query: 30 LRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
LR TG +I+ S++ +VAF + SL +P+ + + A+ +L + + + PA+
Sbjct: 274 LRGTGKAILGSALTVAVAFLALSLARLPSFKTLGVSCAVGVLVALLNAVTLTPAL 328
>gnl|CDD|227390 COG5057, LAG1, Phosphotyrosyl phosphatase activator [Cell division
and chromosome partitioning / Signal transduction
mechanisms].
Length = 353
Score = 26.3 bits (58), Expect = 9.2
Identities = 10/30 (33%), Positives = 13/30 (43%)
Query: 87 WVGSAAPKDQSLLGEDLMTSDEEEDEHTSS 116
G PKD +DL +EE EH +
Sbjct: 297 IFGEFLPKDPGQAPKDLFDGKDEEREHVHT 326
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
0.326 0.138 0.397
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,942,245
Number of extensions: 713393
Number of successful extensions: 1136
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1131
Number of HSP's successfully gapped: 52
Length of query: 162
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 73
Effective length of database: 6,990,096
Effective search space: 510277008
Effective search space used: 510277008
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: 55 (24.9 bits)