RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13897
(86 letters)
>gnl|CDD|163618 cd00842, MPP_ASMase, acid sphingomyelinase and related proteins,
metallophosphatase domain. Acid sphingomyelinase
(ASMase) is a ubiquitously expressed phosphodiesterase
which hydrolyzes sphingomyelin in acid pH conditions to
form ceramide, a bioactive second messenger, as part of
the sphingomyelin signaling pathway. ASMase is
localized at the noncytosolic leaflet of biomembranes
(for example the luminal leaflet of endosomes, lysosomes
and phagosomes, and the extracellular leaflet of plasma
membranes). ASMase-deficient humans develop
Niemann-Pick disease. This disease is characterized by
lysosomal storage of sphingomyelin in all tissues.
Although ASMase-deficient mice are resistant to
stress-induced apoptosis, they have greater
susceptibility to bacterial infection. The latter
correlates with defective phagolysosomal fusion and
antibacterial killing activity in ASMase-deficient
macrophages. ASMase belongs to the metallophosphatase
(MPP) superfamily. MPPs are functionally diverse, but
all share a conserved domain with an active site
consisting of two metal ions (usually manganese, iron,
or zinc) coordinated with octahedral geometry by a cage
of histidine, aspartate, and asparagine residues. The
MPP superfamily includes: the phosphoprotein
phosphatases (PPPs), Mre11/SbcD-like exonucleases,
Dbr1-like RNA lariat debranching enzymes, YfcE-like
phosphodiesterases, purple acid phosphatases (PAPs),
YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 296
Score = 28.4 bits (64), Expect = 0.35
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 9/42 (21%)
Query: 39 LDMFQFEYD-QIQKKPLNVEYLMMDSKMLLPPAGTPLTGNNP 79
D F+ YD +P+NV L+ P+ TP +GNNP
Sbjct: 260 RDEFRVFYDDNDTGEPINV--------ALIAPSVTPYSGNNP 293
>gnl|CDD|240081 cd04730, NPD_like, 2-Nitropropane dioxygenase (NPD), one of the
nitroalkane oxidizing enzyme families, catalyzes
oxidative denitrification of nitroalkanes to their
corresponding carbonyl compounds and nitrites. NDP is a
member of the NAD(P)H-dependent flavin oxidoreductase
family that reduce a range of alternative electron
acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as
electron donor. Some contain 4Fe-4S cluster to transfer
electron from FAD to FMN.
Length = 236
Score = 26.3 bits (59), Expect = 1.7
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 3 LCFHSILSDAHLAAIVNAKEESTSLLRNF 31
S S A+ A++ A E T L R F
Sbjct: 190 ATEESGASPAYKQALLAATAEDTVLTRAF 218
>gnl|CDD|215625 PLN03192, PLN03192, Voltage-dependent potassium channel;
Provisional.
Length = 823
Score = 26.4 bits (58), Expect = 2.0
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 3/29 (10%)
Query: 52 KPLNVEYLMMDSKMLLPPAGTPLTGNNPL 80
L++ L SK++LPP G P N +
Sbjct: 22 GSLSLRNL---SKVILPPLGVPSYNQNHI 47
>gnl|CDD|222563 pfam14131, DUF4298, Domain of unknown function (DUF4298). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria and
eukaryotes. Proteins in this family are typically
between 94 and 105 amino acids in length. There are two
completely conserved residues (Y and D) that may be
functionally important.
Length = 90
Score = 24.9 bits (55), Expect = 3.9
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 28 LRNFYKSEDIFLDMFQFEYDQI 49
LR +Y SE D +I
Sbjct: 36 LRAYYGSEQWMEDYDASNDGEI 57
>gnl|CDD|222526 pfam14075, UBN_AB, Ubinuclein conserved middle domain. Ubinuclein
1 and 2 (UBN1, UBN2) are members of a histone chaperone
complex involved in the formation of a certain type of
facultative heterochromatin, called
senescence-associated heterochromatin foci (SAHF). The
domain described here is conserved in many eukaryotes
such as human, rat, drosophila, and zebra-fish and has
been targeted for protein structure determination by the
Joint Center for Structural Genomics.
Length = 205
Score = 25.4 bits (56), Expect = 4.2
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 14 LAAIVNAKEESTSLLRNFYKSEDIFLDMF 42
L IV ++ S +LLR +S + FL+ F
Sbjct: 154 LYDIVQIRKTSYALLRKRKESLEEFLNEF 182
>gnl|CDD|216839 pfam02002, TFIIE_alpha, TFIIE alpha subunit. The general
transcription factor TFIIE has an essential role in
eukaryotic transcription initiation together with RNA
polymerase II and other general factors. Human TFIIE
consists of two subunits TFIIE-alpha and TFIIE-beta,
and joins the pre-initiation complex after RNA
polymerase II and TFIIF. This family consists of the
conserved amino terminal region of eukaryotic
TFIIE-alpha and proteins from archaebacteria that are
presumed to be TFIIE-alpha subunits also Archaeoglobus
fulgidus tfe.
Length = 105
Score = 24.6 bits (54), Expect = 5.4
Identities = 9/45 (20%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 9 LSDAHLAAIVNAKEESTSLLRNFYKSE-DIFLDMFQFEYDQIQKK 52
L DA L +++ T R ++ + L++ +++ D +++K
Sbjct: 51 LYDARLVKYRRRRDDETGWYRYYWYINYEKLLNVVKYKLDHMRQK 95
>gnl|CDD|232973 TIGR00433, bioB, biotin synthase. Catalyzes the last step of the
biotin biosynthesis pathway. All members of the seed
alignment are in the immediate gene neighborhood of a
bioA gene [Biosynthesis of cofactors, prosthetic groups,
and carriers, Biotin].
Length = 296
Score = 25.1 bits (56), Expect = 5.8
Identities = 8/19 (42%), Positives = 9/19 (47%)
Query: 65 MLLPPAGTPLTGNNPLTAL 83
L+P GTPL PL
Sbjct: 209 FLVPIPGTPLEDAPPLDPE 227
>gnl|CDD|130586 TIGR01523, ATPase-IID_K-Na, potassium and/or sodium efflux P-type
ATPase, fungal-type. Initially described as a calcium
efflux ATPase , more recent work has shown that the S.
pombe CTA3 gene is in fact a potassium ion efflux pump.
This model describes the clade of fungal P-type ATPases
responsible for potassium and sodium efflux. The degree
to which these pumps show preference for sodium or
potassium varies. This group of ATPases has been
classified by phylogentic analysis as type IID. The
Leishmania sequence (GP|3192903), which falls between
trusted and noise in this model, may very well turn out
to be an active potassium pump.
Length = 1053
Score = 24.6 bits (53), Expect = 7.8
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 8 ILSDAHLAAIVNAKEESTSLLRNFYK 33
+LSD + A+I+NA EE + N K
Sbjct: 785 VLSDDNFASILNAIEEGRRMFDNIMK 810
>gnl|CDD|218468 pfam05152, DUF705, Protein of unknown function (DUF705). This
family contains several uncharacterized Baculovirus
proteins.
Length = 297
Score = 24.5 bits (54), Expect = 7.9
Identities = 6/37 (16%), Positives = 13/37 (35%)
Query: 5 FHSILSDAHLAAIVNAKEESTSLLRNFYKSEDIFLDM 41
F I+ A ++ + + S +LD+
Sbjct: 185 FDIIICGGRKAGEYSSDVIVDRKYKVVFVSTPFYLDV 221
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
0.319 0.134 0.384
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,243,937
Number of extensions: 331448
Number of successful extensions: 309
Number of sequences better than 10.0: 1
Number of HSP's gapped: 309
Number of HSP's successfully gapped: 21
Length of query: 86
Length of database: 10,937,602
Length adjustment: 54
Effective length of query: 32
Effective length of database: 8,542,486
Effective search space: 273359552
Effective search space used: 273359552
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 (21.8 bits)
S2: 53 (24.2 bits)