RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4701
(124 letters)
>gnl|CDD|221172 pfam11701, UNC45-central, Myosin-binding striated muscle assembly
central. The UNC-45 or small muscle protein 1 of
C.elegans is expressed in two forms from different
genomic positions in mammals, as a general tissue
protein UNC-45a and a specific form Unc-45b expressed
only in striated and skeletal muscle. All members carry
up to three amino-terminal tetratricopeptide repeat
(TPR) domains towards their N-terminal, a UCS domain at
the C-terminal that contains a number of Arm repeats
pfam00514 and this central region of approximately 400
residues. Both the general form and the muscle form of
UNC-45 function in myotube formation through cell
fusion. Myofibril formation requires both GC and SM
UNC-45, consistent with the fact that the cytoskeleton
is necessary for the development and maintenance of
organised myofibrils. The S. pombe Rng3p, is crucial for
cell shape, normal actin cytoskeleton, and contractile
ring assembly, and is essential for assembly of the
myosin II-containing progenitors of the contractile
ring. Widespread defects in the cytoskeleton are found
in null mutants of all three fungal proteins. Mammalian
Unc45 is found to act as a specific chaperone during the
folding of myosin and the assembly of striated muscle by
forming a stable complex with the general chaperone
Hsp90. The exact function of this central region is not
known.
Length = 155
Score = 38.8 bits (91), Expect = 1e-04
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 78 GPLEVGSSIMAKEGILEMVLVMAN-TEDILQQKVACECIIAVASKKDK 124
GP +VG+++ EG LE +L + +E Q A E + A K+
Sbjct: 73 GPPDVGATLFLSEGFLESLLPLVARSERRKLQLAALELLSAACIDKEC 120
>gnl|CDD|184255 PRK13699, PRK13699, putative methylase; Provisional.
Length = 227
Score = 27.1 bits (60), Expect = 2.5
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 28 PGERSLEVVRPLL-SLLHPEATALETFEGLMALCNLAA 64
P E+ + ++PL+ S HP A L+ F G + C A
Sbjct: 145 PTEKPVTSLQPLIESFTHPNAIVLDPFAGSGSTCVAAL 182
>gnl|CDD|188414 TIGR03899, TIGR03899, TIGR03899 family protein. Members of this
protein family are conserved hypothetical proteins with
a limited species distribution within the
Gammaproteobacteria. It is common in the genera Vibrio
and Shewanella, and in this resembles the C-terminal
domain and putative protein sorting motif TIGR03501.
This model, but design, does not extend to all
homologs,but rather represents a particular clade.
Length = 250
Score = 26.8 bits (60), Expect = 2.6
Identities = 12/52 (23%), Positives = 20/52 (38%), Gaps = 7/52 (13%)
Query: 24 EVAFPGERSLEVVRPLLSLLHPEATALETFEGLMALCNLAA-IGEKQRQRIL 74
E+ PG SL ++ L + EA + +LA G ++L
Sbjct: 89 EITNPGSFSLRTLKTLKQMTQREAQIFQ------KALSLACRFGNDTSLKLL 134
>gnl|CDD|237987 cd00020, ARM, Armadillo/beta-catenin-like repeats. An
approximately 40 amino acid long tandemly repeated
sequence motif first identified in the Drosophila
segment polarity gene armadillo; these repeats were
also found in the mammalian armadillo homolog
beta-catenin, the junctional plaque protein
plakoglobin, the adenomatous polyposis coli (APC) tumor
suppressor protein, and a number of other proteins. ARM
has been implicated in mediating protein-protein
interactions, but no common features among the target
proteins recognized by the ARM repeats have been
identified; related to the HEAT domain; three
consecutive copies of the repeat are represented by
this alignment model.
Length = 120
Score = 26.1 bits (58), Expect = 4.1
Identities = 12/45 (26%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 34 EVVRPLLSLLHPEATALETFEGLMALCNLAAIGEKQRQRILKEKG 78
+ L+SLL + E AL NL+A Q +++ G
Sbjct: 7 GGLPALVSLLSSSDENV-QREAAWALSNLSAGNNDNIQAVVEAGG 50
>gnl|CDD|100003 cd05844, GT1_like_7, Glycosyltransferases catalyze the transfer of
sugar moieties from activated donor molecules to
specific acceptor molecules, forming glycosidic bonds.
The acceptor molecule can be a lipid, a protein, a
heterocyclic compound, or another carbohydrate residue.
This group of glycosyltransferases is most closely
related to the previously defined glycosyltransferase
family 1 (GT1). The members of this family may transfer
UDP, ADP, GDP, or CMP linked sugars. The diverse
enzymatic activities among members of this family
reflect a wide range of biological functions. The
protein structure available for this family has the GTB
topology, one of the two protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility.
Length = 367
Score = 26.4 bits (59), Expect = 4.1
Identities = 15/46 (32%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 8 RQAAQGLARLGITLNPEVAFPGERSLEVVRPLLS----LLHPEATA 49
A + LAR + L V F G + VR L+ L P TA
Sbjct: 231 LAALEALAR-ALGLGGRVTFLGAQPHAEVRELMRRARIFLQPSVTA 275
>gnl|CDD|216756 pfam01875, Memo, Memo-like protein. This family contains members
from all branches of life. The molecular function of
this protein is unknown, but Memo (mediator of
ErbB2-driven cell motility) a human protein is included
in this family. It has been suggested that Memo controls
cell migration by relaying extracellular chemotactic
signals to the microtubule cytoskeleton.
Length = 274
Score = 26.2 bits (58), Expect = 4.5
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 1 MGTVKGKRQAAQGL-ARLGITLNPEVAFPGERSLEVVRPLLSLLHPEAT 48
+G VK + + L + I E+A E SLEV P L L EA
Sbjct: 94 LGDVKVDEELVEELVKKSPIDDLDELAHLYEHSLEVQLPFLQYLFDEAE 142
>gnl|CDD|182923 PRK11041, PRK11041, DNA-binding transcriptional regulator CytR;
Provisional.
Length = 309
Score = 26.1 bits (58), Expect = 5.8
Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 12 QGLARLGITLNPEVAFPGERSLE----VVRPLLSLLHPEATALETFEGLMAL 59
Q L R GIT++P+ G+ + E ++ LL L P TA+ +MAL
Sbjct: 176 QALRRCGITVDPQYIARGDFTFEAGAKALKQLLDLPQP-PTAVFCHSDVMAL 226
>gnl|CDD|237556 PRK13915, PRK13915, putative glucosyl-3-phosphoglycerate synthase;
Provisional.
Length = 306
Score = 26.0 bits (58), Expect = 6.4
Identities = 13/28 (46%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 24 EVAFPGERSLE-VVRPLLSLLHPEATAL 50
A G R E V RPLL+LL PE
Sbjct: 164 VDATGGGRVTELVARPLLNLLRPELAGF 191
>gnl|CDD|237784 PRK14669, uvrC, excinuclease ABC subunit C; Provisional.
Length = 624
Score = 25.6 bits (56), Expect = 8.5
Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 6/69 (8%)
Query: 59 LCNLAAIGEKQRQRILKEKGPLEVGSSIMAKEGILEMVLVMANTEDILQ----QKVACEC 114
L + +G K QR+LK G LE A E L V+ A E I+ ++ A E
Sbjct: 554 LLEIPGVGAKTVQRLLKHFGSLE--RVRAATETQLAAVVGRAAAEAIIAHFTTEEAAPEP 611
Query: 115 IIAVASKKD 123
+ +VA +D
Sbjct: 612 VASVAQSED 620
>gnl|CDD|130767 TIGR01706, NAPA, periplasmic nitrate reductase, large subunit.
This model represents the large subunit of a family of
nitrate reductases found in proteobacteria which are
localized to the periplasm. This subunit binds
molybdopterin and contains a twin-arginine motif at the
N-terminus. The protein associates with NapB, a soluble
heme-containing protein and NapC, a membrane-bound
cytochrome c. The periplasmic nitrate reductases are not
involved in the assimilation of nitrogen, and are not
directly involved in the formation of electrochemical
gradients (i.e. respiration) either. Rather, the purpose
of this enzyme is either dissimilatory (i.e. to dispose
of excess reductive equivalents) or indirectly
respiratory by virtue of the consumption of electrons
derived from NADH via the proton translocating NADH
dehydrogenase. The enzymes from Alicagenes eutrophus and
Paracoccus pantotrophus have been characterized. In E.
coli (as well as other organisms) this gene is part of a
large nitrate reduction operon (napFDAGHBC) [Energy
metabolism, Aerobic, Energy metabolism, Electron
transport, Central intermediary metabolism, Nitrogen
metabolism].
Length = 830
Score = 25.6 bits (56), Expect = 8.8
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 67 EKQRQRILKEKGPLEVG 83
E+Q +R LKEKGP +G
Sbjct: 129 EEQFKRALKEKGPTAIG 145
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
0.317 0.134 0.364
Gapped
Lambda K H
0.267 0.0766 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,132,484
Number of extensions: 546937
Number of successful extensions: 518
Number of sequences better than 10.0: 1
Number of HSP's gapped: 517
Number of HSP's successfully gapped: 25
Length of query: 124
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 39
Effective length of database: 7,167,512
Effective search space: 279532968
Effective search space used: 279532968
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: 53 (24.1 bits)