RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4340
(218 letters)
>gnl|CDD|202894 pfam04117, Mpv17_PMP22, Mpv17 / PMP22 family. The 22-kDa
peroxisomal membrane protein (PMP22) is a major
component of peroxisomal membranes. PMP22 seems to be
involved in pore forming activity and may contribute to
the unspecific permeability of the organelle membrane.
PMP22 is synthesised on free cytosolic ribosomes and
then directed to the peroxisome membrane by specific
targeting information. Mpv17 is a closely related
peroxisomal protein. In mouse, the Mpv17 protein is
involved in the development of early-onset
glomerulosclerosis. More recently a homolog of Mpv17 in
S. cerevisiae has been been found to be an integral
membrane protein of the inner mitochondrial membrane
where it has been proposed to have a role in ethanol
metabolism and tolerance during heat-shock. Defects in
MPV17 is associated with mitochondrial DNA depletion
syndrome (MDDS) and Navajo neurohepatopathy (NNH). MDDS
is a clinically heterogeneous group of disorders
characterized by a reduction in mitochondrial DNA
(mtDNA) copy number. Primary mtDNA depletion is
inherited as an autosomal recessive trait and may affect
single organs, typically muscle or liver, or multiple
tissues. Individuals with the hepatocerebral form of
mitochondrial DNA depletion syndrome have early
progressive liver failure and neurologic abnormalities,
hypoglycemia, and increased lactate in body fluids. NNH
is an autosomal recessive disease that is prevalent
among Navajo children in the South Western states of
America. The major clinical features are hepatopathy,
peripheral neuropathy, corneal anesthesia and scarring,
acral mutilation, cerebral leukoencephalopathy, failure
to thrive, and recurrent metabolic acidosis with
intercurrent infections. Infantile, childhood, and
classic forms of NNH have been described. Mitochondrial
DNA depletion was detected in the livers of patients,
suggesting a primary defect in mtDNA maintenance.
Length = 68
Score = 90.7 bits (226), Expect = 3e-24
Identities = 28/68 (41%), Positives = 44/68 (64%)
Query: 108 IGILEAKPKDEIKEEVRDKFLVIYTTDCLLWPPCQFINFTYISAQYRVIYVNLVSFVYDI 167
+G+LE K +EIKE++++KF + +WPP QFINF ++ YRV++VNLV ++
Sbjct: 1 MGLLEGKSLEEIKEKLKEKFWPTLKANWKVWPPVQFINFAFVPVHYRVLFVNLVGIGWNT 60
Query: 168 LLSYIKYN 175
LSY+
Sbjct: 61 YLSYVNNK 68
>gnl|CDD|204444 pfam10319, 7TM_GPCR_Srj, Serpentine type 7TM GPCR chemoreceptor
Srj. Chemoreception is mediated in Caenorhabditis
elegans by members of the seven-transmembrane
G-protein-coupled receptor class (7TM GPCRs) of proteins
which are of the serpentine type. Srj is part of the Str
superfamily of chemoreceptors. The srj family is
designated as the out-group based on its location in
preliminary phylogenetic analyses of the entire
superfamily. Chemoperception is one of the central
senses of soil nematodes like C. elegans which are
otherwise 'blind' and 'deaf'.
Length = 310
Score = 29.8 bits (68), Expect = 0.97
Identities = 17/88 (19%), Positives = 30/88 (34%), Gaps = 9/88 (10%)
Query: 67 HFFYKYLDKYLPKRSGKSIALKLCLDQAIISPVCIIIFLYGIGILEAKPKDEIKEEVRDK 126
HF Y+YL + P+ + L + + I DEI++ +R+
Sbjct: 109 HFIYRYLVLFNPQLTRHYFRPWGLLISILFF-LFHGSVWTAICYFCLYADDEIRDYIRED 167
Query: 127 FLVIYTTDCLLWPPCQFINFTYISAQYR 154
F Y D + + + A Y
Sbjct: 168 FRETYGVDSM--------DINMLGALYW 187
>gnl|CDD|220973 pfam11084, DUF2621, Protein of unknown function (DUF2621). This
family is conserved in the Bacillaceae family. Several
members are named as YneK. The function is not known.
Length = 141
Score = 28.1 bits (63), Expect = 2.3
Identities = 16/31 (51%), Positives = 17/31 (54%), Gaps = 7/31 (22%)
Query: 55 MGITGLFMGPPQHFFYKYLDKYLPKRSGKSI 85
M I G FM F K+L K LPK GKSI
Sbjct: 21 MAIGGFFM------FRKFL-KRLPKEDGKSI 44
>gnl|CDD|212849 cd11916, SH3_Sorbs1_3, Third (or C-terminal) Src Homology 3 domain
of Sorbin and SH3 domain containing 1 (Sorbs1), also
called ponsin. Sorbs1 is also called ponsin, SH3P12, or
CAP (c-Cbl associated protein). It is an adaptor protein
containing one sorbin homology (SoHo) and three SH3
domains. It binds Cbl and plays a major role in
regulating the insulin signaling pathway by enhancing
insulin-induced phosphorylation of Cbl. Sorbs1, like
vinexin, localizes at cell-ECM and cell-cell adhesion
sites where it binds vinculin, paxillin, and afadin. It
may function in the control of cell motility. Other
interaction partners of Sorbs1 include c-Abl, Sos,
flotillin, Grb4, ataxin-7, filamin C, among others. SH3
domains are protein interaction domains that bind to
proline-rich ligands with moderate affinity and
selectivity, preferentially to PxxP motifs. They play
versatile and diverse roles in the cell including the
regulation of enzymes, changing the subcellular
localization of signaling pathway components, and
mediating the formation of multiprotein complex
assemblies.
Length = 59
Score = 26.5 bits (58), Expect = 2.6
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 163 FVYDILLSYIKYNDDVFGLRGEEIVHHVEK 192
+ Y L SY NDD LR +IV +EK
Sbjct: 2 YSYQALYSYAPQNDDELELRDGDIVDVMEK 31
>gnl|CDD|224891 COG1980, COG1980, Archaeal fructose 1,6-bisphosphatase
[Carbohydrate transport and metabolism].
Length = 369
Score = 28.2 bits (63), Expect = 3.7
Identities = 14/41 (34%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 167 ILLSYIKYNDDVFGLRGEEIVHHVEKDKIEESLANAVDKRL 207
+ +S IK DV L G VH + EE L AV +
Sbjct: 3 VTISVIK--ADVGSLPGHSRVHPDLIEAAEEVLEEAVKNGI 41
>gnl|CDD|205379 pfam13198, DUF4014, Protein of unknown function (DUF4014). This is
a bacterial and viral family of uncharacterized
proteins.
Length = 72
Score = 25.5 bits (56), Expect = 6.6
Identities = 13/43 (30%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 71 KYLDKYLPKRSGKSIALKLCLDQAIISPVCIIIFLYGIG-ILE 112
K K P++S + L L L ++ P+ +I ++ IG I+E
Sbjct: 3 KTYRKNYPRKSRTTEFLFLILFLVLMVPISPLILVWIIGKIIE 45
>gnl|CDD|232828 TIGR00110, ilvD, dihydroxy-acid dehydratase. This protein,
dihydroxy-acid dehydratase, catalyzes the fourth step in
valine and isoleucine biosynthesis. It contains a
catalytically essential [4Fe-4S] cluster This model
generates scores of up to 150 bits vs.
6-phosphogluconate dehydratase, a homologous enzyme
[Amino acid biosynthesis, Pyruvate family].
Length = 535
Score = 27.0 bits (60), Expect = 8.1
Identities = 11/40 (27%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 12 KYLFYTNTLGGGVLMCLGDTIQQTIELYTKADKTGYDLKR 51
K L L G L G T+ + +E G D+ R
Sbjct: 306 KELDREGLLHGDTLTVTGKTLGEILEQA-PVIPEGQDVIR 344
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
0.324 0.143 0.430
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,379,563
Number of extensions: 1106427
Number of successful extensions: 971
Number of sequences better than 10.0: 1
Number of HSP's gapped: 971
Number of HSP's successfully gapped: 23
Length of query: 218
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 125
Effective length of database: 6,812,680
Effective search space: 851585000
Effective search space used: 851585000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 57 (25.7 bits)