RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4706
(163 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 = 42.6 bits (101), Expect = 1e-05
Identities = 18/63 (28%), Positives = 33/63 (52%), Gaps = 5/63 (7%)
Query: 59 SMEITEDTHTLASLCLARIFENMYYDQARERYLESIMEFIKDKLLSPDIESKVRVTVAIT 118
+ +TE+ +LA L L++ D A+E + E I EFI+ + +++S + A+T
Sbjct: 14 PLRVTEEVRSLALLILSK-----LLDAAKENFTEVISEFIESLIDEGEVDSLINAVSALT 68
Query: 119 CLL 121
L
Sbjct: 69 ALF 71
>gnl|CDD|223569 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 814
Score = 29.9 bits (68), Expect = 0.58
Identities = 16/77 (20%), Positives = 32/77 (41%), Gaps = 3/77 (3%)
Query: 27 KAINWAERLIE--IRGLQRLMEVASELQEYKYESSM-EITEDTHTLASLCLARIFENMYY 83
+ + W+E +E R LQR+ + E E E E ++ L + ++ E+
Sbjct: 614 QDLEWSESGVEGARRFLQRVWNLVKEHLEKLVEELTKEQGKEDRWLLHRTIKKVTEDFEA 673
Query: 84 DQARERYLESIMEFIKD 100
Q + ++ME +
Sbjct: 674 RQTFNTAIAALMELLNA 690
>gnl|CDD|216105 pfam00761, Polyoma_coat2, Polyomavirus coat protein.
Length = 322
Score = 29.4 bits (66), Expect = 0.84
Identities = 18/65 (27%), Positives = 24/65 (36%), Gaps = 4/65 (6%)
Query: 17 IQLITRNVHY-KAINWAERLIEIRGLQRLMEVASELQEYKYESSMEITEDTHTLASLCLA 75
+ + VHY +W L G Q E+ E +S E+ T S LA
Sbjct: 137 AETFSNFVHYLDPRHWGPSLFNAVG-QAFWELMREDI--GQITSRELARRTTRSLSDTLA 193
Query: 76 RIFEN 80
R EN
Sbjct: 194 RFLEN 198
>gnl|CDD|215625 PLN03192, PLN03192, Voltage-dependent potassium channel;
Provisional.
Length = 823
Score = 29.1 bits (65), Expect = 1.2
Identities = 26/96 (27%), Positives = 49/96 (51%), Gaps = 9/96 (9%)
Query: 69 LASLCLARIFENMYYDQARERYLESIMEFIKDKLLSPDIESKVRVTVAITCLLLASLVSL 128
LA +CL E++ Q ++ +SI + I L P +E KV + ++ +L LV+
Sbjct: 338 LAYMCLRFKAESLNQQQLIDQLPKSICKSICQHLFLPVVE-KVYLFKGVSREILLLLVT- 395
Query: 129 EGSAPRSRVRF-PPRANFVL-NRRTCQVYLIVAGEL 162
+ + + PPR + ++ N VY++V+GE+
Sbjct: 396 -----KMKAEYIPPREDVIMQNEAPDDVYIVVSGEV 426
>gnl|CDD|99858 cd06105, ScCit1-2_like, Saccharomyces cerevisiae (Sc) citrate
synthases Cit1-2_like. Citrate synthases (CS) catalyzes
the condensation of acetyl coenzyme A (AcCoA) with
oxaloacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the citric acid cycle (TCA or Krebs
cycle). Some CS proteins function as 2-methylcitrate
synthase (2MCS). 2MCS catalyzes the condensation of
propionyl-coenzyme A (PrCoA) and OAA to form
2-methylcitrate and CoA during propionate metabolism.
The overall CS reaction is thought to proceed through
three partial reactions and involves both closed and
open conformational forms of the enzyme: a) the
carbanion or equivalent is generated from AcCoA by base
abstraction of a proton, b) the nucleophilic attack of
this carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). ScCit1 is a
nuclear-encoded mitochondrial CS with highly specificity
for AcCoA. In addition to its CS function, ScCit1 plays
a part in the construction of the TCA cycle metabolon.
Yeast cells deleted for Cit1 are hyper-susceptible to
apoptosis induced by heat and aging stress. ScCit2 is a
peroxisomal CS involved in the glyoxylate cycle; in
addition to having activity with AcCoA, it may have
activity with PrCoA. Chicken and pig heart CS, two
Arabidopsis thaliana (Ath) CSs, CSY4 and -5, and
Aspergillus niger (An) CS also belong to this group. Ath
CSY4 has a mitochondrial targeting sequence; AthCSY5 has
no identifiable targeting sequence. AnCS encoded by the
citA gene has both an N-terminal mitochondrial import
signal and a C-terminal peroxisiomal target sequence; it
is not known if both these signals are functional in
vivo. This group contains proteins which functions
exclusively as either a CS or a 2MCS, as well as those
with relaxed specificity which have dual functions as
both a CS and a 2MCS.
Length = 427
Score = 27.3 bits (61), Expect = 4.5
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 4/36 (11%)
Query: 49 SELQEYKYESSMEITEDTHTLASLCLARIFENMYYD 84
S+ EY YE SM++ +A A+I+ N+Y
Sbjct: 160 SKYWEYVYEDSMDLIAKLPCVA----AKIYRNLYRG 191
>gnl|CDD|237273 PRK13018, PRK13018, cell division protein FtsZ; Provisional.
Length = 378
Score = 26.9 bits (60), Expect = 5.3
Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 11/39 (28%)
Query: 91 LESIMEFIKDKL-----------LSPDIESKVRVTVAIT 118
I ++L + PD+E KVRV V +T
Sbjct: 291 ANEAASRITEELDPEANIIWGARIDPDMEGKVRVMVIMT 329
>gnl|CDD|220722 pfam10374, EST1, Telomerase activating protein Est1. Est1 is a
protein which recruits or activates telomerase at the
site of polymerisation.
Length = 125
Score = 25.5 bits (56), Expect = 8.6
Identities = 14/94 (14%), Positives = 26/94 (27%), Gaps = 13/94 (13%)
Query: 16 IIQLITRNVHYKAINWAERLIEIRGLQRLMEVASELQEYKYESSMEITEDTHTLASLCLA 75
+ ++ + +HY I W G +R +L L L
Sbjct: 3 VEDILWKKIHYPIIEWFRHWRNRAGKKRKAVEFRKLN-------------KKLLKFLKEG 49
Query: 76 RIFENMYYDQARERYLESIMEFIKDKLLSPDIES 109
F + +Y ++ + L D S
Sbjct: 50 IGFYKTLIQKLCAKYNLDLLSPVASFELLTDSLS 83
>gnl|CDD|130853 TIGR01793, cit_synth_euk, citrate (Si)-synthase, eukaryotic. This
model includes both mitochondrial and peroxisomal forms
of citrate synthase. Citrate synthase is the entry point
to the TCA cycle from acetyl-CoA. Peroxisomal forms,
such as SP:P08679 from yeast (recognized by the
C-terminal targeting motif SKL) act in the glyoxylate
cycle. Eukaryotic homologs excluded by the high trusted
cutoff of this model include a Tetrahymena thermophila
citrate synthase that doubles as a filament protein, a
putative citrate synthase from Plasmodium falciparum (no
TCA cycle), and a methylcitrate synthase from
Aspergillus nidulans.
Length = 427
Score = 26.4 bits (58), Expect = 9.5
Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 4/32 (12%)
Query: 53 EYKYESSMEITEDTHTLASLCLARIFENMYYD 84
EY YE SM++ T+A A I+ NMY D
Sbjct: 167 EYTYEDSMDLIAKLPTVA----AYIYRNMYKD 194
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
0.322 0.136 0.380
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,219,195
Number of extensions: 739939
Number of successful extensions: 784
Number of sequences better than 10.0: 1
Number of HSP's gapped: 783
Number of HSP's successfully gapped: 23
Length of query: 163
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 74
Effective length of database: 6,990,096
Effective search space: 517267104
Effective search space used: 517267104
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 (21.9 bits)
S2: 55 (25.1 bits)