RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7097
(63 letters)
>gnl|CDD|220670 pfam10274, ParcG, Parkin co-regulated protein. This family of
proteins is transcribed anti-sense along the DNA to the
Parkin gene product and the two appear to be transcribed
under the same promoter. The protein has predicted
alpha-helical and beta-sheet domains which suggest its
function is in the ubiquitin/proteasome system.
Mutations in parkin are the genetic cause of early-onset
and autosomal recessive juvenile parkinsonism.
Length = 183
Score = 86.2 bits (214), Expect = 3e-23
Identities = 36/55 (65%), Positives = 45/55 (81%), Gaps = 2/55 (3%)
Query: 1 MYKDLNKNTGDAIDYSQMKRENIGDLVQETLQILERHGGEDACIYIKYMIPTYES 55
++K+ N N GD IDY K++NIGDL+QETL++LER+GG DA I IKYMIPTYES
Sbjct: 131 LFKNKNVNLGDRIDY--RKKKNIGDLIQETLELLERNGGPDALINIKYMIPTYES 183
>gnl|CDD|176517 cd08575, GDPD_GDE4_like, Glycerophosphodiester phosphodiesterase
domain of mammalian glycerophosphodiester
phosphodiesterase GDE4-like proteins. This subfamily
corresponds to the glycerophosphodiester
phosphodiesterase domain (GDPD) present in mammalian
GDE4 (also known as glycerophosphodiester
phosphodiesterase domain-containing protein 1 (GDPD1))
and similar proteins. Mammalian GDE4 is a transmembrane
protein whose cellular function is not elucidated. It is
expressed widely, including in placenta, liver, kidney,
pancreas, spleen, thymus, ovary, small intestine and
peripheral blood leukocytes. It is also expressed in the
growth cones in neuroblastoma Neuro2a cells, which
suggests mammalian GDE4 may play some distinct role from
other members of mammalian GDEs family. Also included in
this subfamily are uncharacterized mammalian
glycerophosphodiester phosphodiesterase
domain-containing protein 3 (GDPD3) and similar proteins
which display very high sequence homology to mammalian
GDE4.
Length = 264
Score = 27.2 bits (61), Expect = 0.41
Identities = 7/28 (25%), Positives = 16/28 (57%)
Query: 18 MKRENIGDLVQETLQILERHGGEDACIY 45
+K + +L+ L +LE++ ED ++
Sbjct: 116 IKSPDAEELIAAVLDLLEKYKREDRTVW 143
>gnl|CDD|240011 cd04640, CBS_pair_27, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 126
Score = 26.9 bits (60), Expect = 0.46
Identities = 9/27 (33%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 11 DAIDYSQMKRENIGDLVQETLQILERH 37
A+D +++ ++GD+V ETL+ R
Sbjct: 77 KALDLEELENASVGDVV-ETLKASGRQ 102
>gnl|CDD|236793 PRK10909, rsmD, 16S rRNA m(2)G966-methyltransferase; Provisional.
Length = 199
Score = 26.2 bits (58), Expect = 0.91
Identities = 9/23 (39%), Positives = 17/23 (73%), Gaps = 2/23 (8%)
Query: 26 LVQETLQILERHG--GEDACIYI 46
L++ET+ +LE +G ++A IY+
Sbjct: 135 LLEETINLLEDNGWLADEALIYV 157
>gnl|CDD|226280 COG3757, Acm, Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell
envelope biogenesis, outer membrane].
Length = 269
Score = 25.5 bits (56), Expect = 2.0
Identities = 10/35 (28%), Positives = 14/35 (40%), Gaps = 3/35 (8%)
Query: 15 YSQMKRENIGDLVQET---LQILERHGGEDACIYI 46
Y R N+ + L LE+ GG+ IY
Sbjct: 159 YWSDVRPNMEQMNAGVLAFLDKLEKLGGKKPGIYT 193
>gnl|CDD|173731 cd06627, STKc_Cdc7_like, Catalytic domain of Cell division
control protein 7-like Protein Serine/Threonine
Kinases. Serine/threonine kinases (STKs), (Cdc7)-like
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
Cdc7-like subfamily is part of a larger superfamily
that includes the catalytic domains of other protein
STKs, protein tyrosine kinases, RIO kinases,
aminoglycoside phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. Members of this subfamily
include Schizosaccharomyces pombe Cdc7, Saccharomyces
cerevisiae Cdc15, Arabidopsis thaliana
mitogen-activated protein kinase (MAPK) kinase kinase
(MAPKKK) epsilon, and related proteins. MAPKKKs
phosphorylate and activate MAPK kinases (MAPKKs or MKKs
or MAP2Ks), which in turn phosphorylate and activate
MAPKs during signaling cascades that are important in
mediating cellular responses to extracellular signals.
Fission yeast Cdc7 is essential for cell division by
playing a key role in the initiation of septum
formation and cytokinesis. Budding yeast Cdc15
functions to coordinate mitotic exit with cytokinesis.
Arabidopsis MAPKKK epsilon is required for pollen
development in the plasma membrane.
Length = 254
Score = 24.1 bits (53), Expect = 5.5
Identities = 12/33 (36%), Positives = 17/33 (51%), Gaps = 5/33 (15%)
Query: 2 YKDLNKNTGD-----AIDYSQMKRENIGDLVQE 29
YK LN TGD I ++K E + ++QE
Sbjct: 17 YKGLNLETGDFVAIKQISLEKIKEEALKSIMQE 49
>gnl|CDD|147008 pfam04639, Baculo_E56, Baculoviral E56 protein, specific to ODV
envelope. This family represents the E56 protein, which
is localises to the occlusion derived virus (ODV)
envelope, but not to the budded virus (BV) envelope.
Length = 308
Score = 23.8 bits (52), Expect = 6.6
Identities = 16/42 (38%), Positives = 19/42 (45%), Gaps = 7/42 (16%)
Query: 22 NIGDLVQETLQILERHGGEDACIYIKYMI---PTYESCILRY 60
N DLVQ+ + L R GG Y ESC+LRY
Sbjct: 131 NAADLVQDIVDALNRTGGS----YYYRGNNGGDNIESCLLRY 168
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 0.138 0.404
Gapped
Lambda K H
0.267 0.0774 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,111,155
Number of extensions: 216326
Number of successful extensions: 258
Number of sequences better than 10.0: 1
Number of HSP's gapped: 257
Number of HSP's successfully gapped: 10
Length of query: 63
Length of database: 10,937,602
Length adjustment: 34
Effective length of query: 29
Effective length of database: 9,429,566
Effective search space: 273457414
Effective search space used: 273457414
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 (21.7 bits)
S2: 53 (24.1 bits)