RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14433
(144 letters)
>gnl|CDD|219086 pfam06553, BNIP3, BNIP3. This family consists of several mammalian
specific BCL2/adenovirus E1B 19-kDa protein-interacting
protein 3 or BNIP3 sequences. BNIP3 belongs to the Bcl-2
homology 3 (BH3)-only family, a Bcl-2-related family
possessing an atypical Bcl-2 homology 3 (BH3) domain,
which regulates PCD from mitochondrial sites by
selective Bcl-2/Bcl-XL interactions. BNIP3 family
members contain a C-terminal transmembrane domain that
is required for their mitochondrial localisation,
homodimerisation, as well as regulation of their
pro-apoptotic activities. BNIP3-mediated apoptosis has
been reported to be independent of caspase activation
and cytochrome c release and is characterized by early
plasma membrane and mitochondrial damage, prior to the
appearance of chromatin condensation or DNA
fragmentation.
Length = 197
Score = 133 bits (335), Expect = 3e-40
Identities = 53/121 (43%), Positives = 71/121 (58%), Gaps = 2/121 (1%)
Query: 12 SPKSPPNSPNTELSTEDDHLKGVYINFANKDELVANFDKSTDWIWDWSSRPDQAPPKDWK 71
SP P SP TEL E D L+ VYI + K+TDWIWDWSSRP+ PPK++K
Sbjct: 76 SPTPPQESPQTELDVEMDSLRDVYIQSEEEAGEKLKEVKNTDWIWDWSSRPENIPPKEFK 135
Query: 72 FRHPK-SKSYSMRYAKVGKN-SLFSKEVMYTLFVTNIISILLGTGVGMWLSRRGMLIASN 129
F HPK S S S+R +V K LFS E + T ++S LLG G+G+++ +R L+ +
Sbjct: 136 FVHPKRSVSLSIRKTRVMKKGGLFSAEFLKVFLPTLLLSHLLGLGLGIYIGKRLTLLTRS 195
Query: 130 V 130
Sbjct: 196 T 196
>gnl|CDD|218103 pfam04474, DUF554, Protein of unknown function (DUF554). Family of
uncharacterized prokaryotic proteins. Multiple predicted
transmembrane regions suggest that the region is
membrane associated.
Length = 225
Score = 28.6 bits (65), Expect = 1.1
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 103 VTNIISILLGTGVGMWLSRR 122
+ N +IL G +G+ L +R
Sbjct: 5 IVNAAAILAGGLLGLLLGKR 24
>gnl|CDD|226864 COG4457, SrfB, Uncharacterized protein conserved in bacteria,
putative virulence factor [Function unknown].
Length = 1014
Score = 28.3 bits (63), Expect = 1.6
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 10 SFSPKSPPNSPNTEL--STEDDHLKGVYINFANKDELVANFDKSTDWIWDW 58
+F K PNSPN E+D ++G FA++ E VA+F W+ +W
Sbjct: 140 AFDSKLAPNSPNRAYLAPCEEDAMRGESFAFASRLEDVASFLDQK-WVDEW 189
>gnl|CDD|129744 TIGR00659, TIGR00659, TIGR00659 family protein. Members of this
small but broadly distibuted (Gram-positive,
Gram-negative, and Archaeal) family appear to have
multiple transmembrane segments. The function is
unknown. A homolog, LrgB of Staphylococcus aureus, in
the same small superfamily but in an outgroup to this
subfamily, is regulated by LytSR and is suggested to act
as a murein hydrolase. Of the three paralogous proteins
in B. subtilis, one is a full length member of this
family, one lacks the C-terminal 60 residues and has an
additional 128 N-terminal residues but branches within
the family in a phylogenetic tree, and one is closely
related to LrgB and part of the outgroup [Hypothetical
proteins, Conserved].
Length = 226
Score = 27.8 bits (62), Expect = 1.7
Identities = 13/41 (31%), Positives = 25/41 (60%)
Query: 93 FSKEVMYTLFVTNIISILLGTGVGMWLSRRGMLIASNVAKS 133
+ KE++ + V ++I+I+ GT + + L +IAS + KS
Sbjct: 86 YWKEIILNVAVGSVIAIISGTLLALLLGLGPEIIASLLPKS 126
>gnl|CDD|240313 PTZ00206, PTZ00206, amino acid transporter; Provisional.
Length = 467
Score = 27.9 bits (62), Expect = 2.2
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 99 YTLFVTNIISILLGTGVGMW 118
Y + +T +I+I+ GTG +W
Sbjct: 443 YVVLITGVIAIVFGTGATIW 462
>gnl|CDD|211420 cd11579, Glyco_tran_WbsX, Glycosyl hydrolase family 99-like domain
of WbsX-like glycosyltransferases. Members of this
domain family are found in proteins within O-antigen
biosynthesis clusters in Gram negative bacteria, where
they may function as glycosyl hydrolases and typically
co-occur with glycosyltransferase domains. They bear
resemblance to GH71 and the GH99 family of
alpha-1,2-mannosidases and may share a similar cataltyic
site and mechanism. The O-antigens are essential
lipopolysaccharides in gram-negative bacteria's outer
membrane and have been linked to pathogenicity.
Length = 347
Score = 27.9 bits (63), Expect = 2.2
Identities = 11/76 (14%), Positives = 25/76 (32%), Gaps = 4/76 (5%)
Query: 31 LKGVYI----NFANKDELVANFDKSTDWIWDWSSRPDQAPPKDWKFRHPKSKSYSMRYAK 86
L G+Y+ +F +D FD + ++ + + + + Y
Sbjct: 190 LPGLYLVAVASFGIEDPRDLGFDAAVEFPPHYVVASELSKSRKLLKLKKGFGGNVYDYDD 249
Query: 87 VGKNSLFSKEVMYTLF 102
+ K L + Y +
Sbjct: 250 LVKYILNRPDPDYPYY 265
>gnl|CDD|225901 COG3366, COG3366, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 311
Score = 27.7 bits (62), Expect = 2.6
Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 7/43 (16%)
Query: 92 LFSKEVMYTLFVTNIIS-------ILLGTGVGMWLSRRGMLIA 127
L KE + L + I+S L T V ++ + G+ I
Sbjct: 248 LSEKEALIALLLGGILSLPIIYLKHSLPTYVSIFGRKLGLKIV 290
>gnl|CDD|227608 COG5283, COG5283, Phage-related tail protein [Function unknown].
Length = 1213
Score = 27.6 bits (61), Expect = 2.6
Identities = 16/72 (22%), Positives = 24/72 (33%), Gaps = 1/72 (1%)
Query: 24 LSTEDDHLKGVYINFANKDELVANFDKSTDWIWDWSSRPDQAPPKDWKFRHPKSKSYSMR 83
+ D + AN D + ANF K + D + + KD SK +
Sbjct: 822 VKIWKDLKPEQKVMIANWDTIKANFKKQFSGVGDSLTPSMKTLVKDNSDVLNASKGMIVE 881
Query: 84 YAKVGKNSLFSK 95
KN F+
Sbjct: 882 ENVDLKN-TFAG 892
>gnl|CDD|220279 pfam09527, ATPase_gene1, Putative F0F1-ATPase subunit
(ATPase_gene1). This model represents a protein found
encoded in F1F0-ATPase operons in several genomes,
including Methanosarcina barkeri (archaeal) and
Chlorobium tepidum (bacterial). It is a small protein
(about 100 amino acids) with long hydrophobic stretches
and is presumed to be a subunit of the enzyme.
Length = 55
Score = 25.5 bits (57), Expect = 2.8
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 98 MYTLFVTNIISILLGTGVGMWLSRR 122
L ++ + ILLG +G WL +
Sbjct: 3 AGQLGISLVAPILLGVFLGYWLDKW 27
>gnl|CDD|240532 cd13127, MATE_tuaB_like, Uncharacterized subfamily of the multidrug
and toxic compound extrusion (MATE) proteins. This
family might function as a translocase for
lipopolysaccharides and participate in the biosynthesis
of cell wall components such as teichuronic acid. The
integral membrane proteins from the MATE family are
involved in exporting metabolites across the cell
membrane and are responsible for multidrug resistance
(MDR) in many bacteria and animals. A number of family
members are involved in the synthesis of peptidoglycan
components in bacteria.
Length = 406
Score = 27.4 bits (62), Expect = 3.0
Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 5/49 (10%)
Query: 90 NSLFSKEVMY-TLFVTNIISILLGTGVGMWLSRRGM----LIASNVAKS 133
+L +E+ + L + +IS L+ V + L+ G L+A + +
Sbjct: 126 RALLQRELRFKKLAIIELISTLVSGVVAIVLALLGFGVWALVAQQLVGA 174
>gnl|CDD|227110 COG4769, COG4769, Predicted membrane protein [Function unknown].
Length = 181
Score = 27.0 bits (60), Expect = 3.4
Identities = 9/30 (30%), Positives = 16/30 (53%)
Query: 92 LFSKEVMYTLFVTNIISILLGTGVGMWLSR 121
+F+ VM L + + I+ GT VG+ +
Sbjct: 130 VFTTSVMLYLPLLIFLGIVSGTAVGILANT 159
>gnl|CDD|237134 PRK12554, PRK12554, undecaprenyl pyrophosphate phosphatase;
Reviewed.
Length = 276
Score = 26.7 bits (60), Expect = 4.3
Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 92 LFSKEVMYTLFVTNIISI-LLGTGVGMWLSRR 122
LF + L I++I L+ TGV +WL+
Sbjct: 104 LFKDRIETVLRDLRIVAIALIVTGVLLWLADN 135
>gnl|CDD|223279 COG0201, SecY, Preprotein translocase subunit SecY [Intracellular
trafficking and secretion].
Length = 436
Score = 26.8 bits (60), Expect = 4.6
Identities = 10/42 (23%), Positives = 20/42 (47%), Gaps = 10/42 (23%)
Query: 102 FVTNIISILLGTGVGMWL----SRRG------MLIASNVAKS 133
++ I+ + GT MWL ++RG ++I + + S
Sbjct: 154 YLLIILQLTAGTMFLMWLGEQITKRGIGNGISLIIFAGIVAS 195
>gnl|CDD|223462 COG0385, COG0385, Predicted Na+-dependent transporter [General
function prediction only].
Length = 319
Score = 26.8 bits (60), Expect = 4.6
Identities = 10/40 (25%), Positives = 15/40 (37%)
Query: 83 RYAKVGKNSLFSKEVMYTLFVTNIISILLGTGVGMWLSRR 122
YA +FV I+ LLG +G + +R
Sbjct: 207 VYAAFSAAVENGIWSGLLIFVAVILHNLLGLLLGYFGARL 246
>gnl|CDD|223116 COG0038, EriC, Chloride channel protein EriC [Inorganic ion
transport and metabolism].
Length = 443
Score = 26.5 bits (59), Expect = 5.2
Identities = 10/54 (18%), Positives = 18/54 (33%), Gaps = 6/54 (11%)
Query: 90 NSLFSKEVMYTLFVTNIISILLGTGVGMWLSRRG--MLIASNVAKSKRMWLSRR 141
+ + +++ LL G G L R G + I + + L R
Sbjct: 101 LHGRKGRISPRVLPVKLVATLLTIGSGASLGREGPSVQIGAAIG----SLLGRL 150
>gnl|CDD|215864 pfam00335, Tetraspannin, Tetraspanin family.
Length = 221
Score = 26.2 bits (58), Expect = 6.1
Identities = 11/24 (45%), Positives = 16/24 (66%), Gaps = 3/24 (12%)
Query: 99 YTLFVTNIISILLGT---GVGMWL 119
Y LF+ N++ +LLG VG+WL
Sbjct: 4 YLLFLLNLLFLLLGLALLAVGIWL 27
>gnl|CDD|221861 pfam12929, Mid1, Stretch-activated Ca2+-permeable channel
component. MID1 is a yeast Saccharomyces cerevisiae
gene encoding a plasma membrane protein required for
Ca2+ influx induced by the mating pheromone,
alpha-factor. Mid1 protein plays a crucial role in
supplying Ca2+ during the mating process. Mid1 is
composed of 548-amino-acid residues with four
hydrophobic regions named H1, H2, H3 and H4, and two
cysteine-rich regions (C1 and C2) at the C-terminal.
This family contains the H3, H4, C1 and C2 regions.
suggesting that H1 is a signal sequence responsible for
the alpha-factor-induced Mid1 delivery to the plasma
membrane. The region from H1 to H3 is required for the
localisation of Mid1 in the plasma and ER membranes.
Trafficking of Mid1-GFP to the plasma membrane is
dependent on the N-glycosylation of Mid1 and the
transporter protein Sec12. This findings suggests that
the trafficking of Mid1-GFP to the plasma membrane
requires a Sec12-dependent pathway from the ER to the
Golgi, and that Mid1 is recruited via a Sec6- and
Sec7-independent pathway from the Golgi to the plasma
membrane.
Length = 427
Score = 26.5 bits (59), Expect = 6.2
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 13 PKSPPNSPNTELSTE-DDHLKGVYINF 38
P +P TEL+ DD+ +Y NF
Sbjct: 252 PSNPNLGNKTELAKIYDDYAASLYTNF 278
>gnl|CDD|236879 PRK11195, PRK11195, lysophospholipid transporter LplT; Provisional.
Length = 393
Score = 26.0 bits (58), Expect = 8.3
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 106 IISILLGTGVGMWLSRRGMLIA 127
I +ILLGT +G L+ A
Sbjct: 134 IAAILLGTVLGGALADPHAEAA 155
>gnl|CDD|233745 TIGR02141, modB_ABC, molybdate ABC transporter, permease protein.
This model describes the permease protein, ModB, of the
molybdate ABC transporter. This system has been
characterized in E. coli , Staphylococcus carnosus
Rhodobacter capsulatus and Azotobacter vinlandii.
Molybdate is chemically similar to sulfate, thiosulfate,
and selenate. These related substrates, and sometimes
molybdate itself, can be transported by the homologous
sulfate receptor. Some apparent molybdenum transport
operons include a permease related to this ModB,
although less similar than some sulfate permease
proteins and not included in this model [Transport and
binding proteins, Anions].
Length = 208
Score = 25.7 bits (57), Expect = 8.4
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 102 FVTNIISILLGTGVGMWLSRRG 123
+ ++ + LG V WL+R
Sbjct: 8 VIATLLLLPLGIPVAWWLARSR 29
>gnl|CDD|220189 pfam09342, DUF1986, Domain of unknown function (DUF1986). This
domain is found in serine proteases and is predicted to
contain disulphide bonds.
Length = 267
Score = 26.2 bits (57), Expect = 8.4
Identities = 5/16 (31%), Positives = 8/16 (50%)
Query: 41 KDELVANFDKSTDWIW 56
+ E+V F + W W
Sbjct: 3 ETEVVQTFKEELHWPW 18
>gnl|CDD|226644 COG4176, ProW, ABC-type proline/glycine betaine transport system,
permease component [Amino acid transport and
metabolism].
Length = 290
Score = 25.7 bits (57), Expect = 9.8
Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 95 KEVMYTL---FVTNIISILLGTGVGMWLSRR 122
+ M TL +ISI++G +G+W +R
Sbjct: 92 DQTMQTLALVLTATLISIVIGIPLGIWAARS 122
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
0.318 0.132 0.417
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: 7,287,960
Number of extensions: 615154
Number of successful extensions: 738
Number of sequences better than 10.0: 1
Number of HSP's gapped: 736
Number of HSP's successfully gapped: 38
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (24.5 bits)