RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11353
(76 letters)
>gnl|CDD|216043 pfam00651, BTB, BTB/POZ domain. The BTB (for BR-C, ttk and bab)
or POZ (for Pox virus and Zinc finger) domain is
present near the N-terminus of a fraction of zinc
finger (pfam00096) proteins and in proteins that
contain the pfam01344 motif such as Kelch and a family
of pox virus proteins. The BTB/POZ domain mediates
homomeric dimerisation and in some instances
heteromeric dimerisation. The structure of the
dimerised PLZF BTB/POZ domain has been solved and
consists of a tightly intertwined homodimer. The
central scaffolding of the protein is made up of a
cluster of alpha-helices flanked by short beta-sheets
at both the top and bottom of the molecule. POZ domains
from several zinc finger proteins have been shown to
mediate transcriptional repression and to interact with
components of histone deacetylase co-repressor
complexes including N-CoR and SMRT. The POZ or BTB
domain is also known as BR-C/Ttk or ZiN.
Length = 101
Score = 58.4 bits (142), Expect = 5e-13
Identities = 23/48 (47%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 28 QLLDGEDLTDVTLSAGGRHMKAHKVVLSACSHYFKQLFKVSKSSAEIT 75
+L + +L DVTL G + AHK VL+ACS YFK LF EIT
Sbjct: 3 ELRENGELCDVTLVVGDKEFHAHKAVLAACSPYFKALFT-GNKEVEIT 49
>gnl|CDD|197585 smart00225, BTB, Broad-Complex, Tramtrack and Bric a brac.
Domain in Broad-Complex, Tramtrack and Bric a brac.
Also known as POZ (poxvirus and zinc finger) domain.
Known to be a protein-protein interaction motif found
at the N-termini of several C2H2-type transcription
factors as well as Shaw-type potassium channels. Known
structure reveals a tightly intertwined dimer formed
via interactions between N-terminal strand and helix
structures. However in a subset of BTB/POZ domains,
these two secondary structures appear to be missing. Be
aware SMART predicts BTB/POZ domains without the beta1-
and alpha1-secondary structures.
Length = 97
Score = 49.6 bits (119), Expect = 1e-09
Identities = 18/30 (60%), Positives = 20/30 (66%)
Query: 37 DVTLSAGGRHMKAHKVVLSACSHYFKQLFK 66
DVTL GG+ AHK VL+A S YFK LF
Sbjct: 1 DVTLVVGGKKFHAHKAVLAAHSPYFKALFS 30
>gnl|CDD|165086 PHA02713, PHA02713, hypothetical protein; Provisional.
Length = 557
Score = 40.8 bits (95), Expect = 1e-05
Identities = 19/45 (42%), Positives = 30/45 (66%), Gaps = 1/45 (2%)
Query: 22 LLATLPQLLDGEDLTDVTLSAG-GRHMKAHKVVLSACSHYFKQLF 65
+++ + LLD + L DV ++ G G +KAHK +L+A S YF+ LF
Sbjct: 12 VVSNISNLLDDDILCDVIITIGDGEEIKAHKTILAAGSKYFRTLF 56
>gnl|CDD|222983 PHA03098, PHA03098, kelch-like protein; Provisional.
Length = 534
Score = 37.4 bits (87), Expect = 2e-04
Identities = 15/38 (39%), Positives = 24/38 (63%)
Query: 38 VTLSAGGRHMKAHKVVLSACSHYFKQLFKVSKSSAEIT 75
+ + GG +K HK++LS+ S YFK++FK + EI
Sbjct: 14 IIIVNGGGIIKVHKIILSSSSEYFKKMFKNNFKENEIN 51
>gnl|CDD|221838 pfam12896, Apc4, Anaphase-promoting complex, cyclosome, subunit 4.
Apc4 is one of the larger of the subunits of the
anaphase-promoting complex or cyclosome. This family
represents the long domain downstream of the WD40
repeat/s that are present on the Apc4 subunits. The
anaphase-promoting complex is a multiprotein subunit E3
ubiquitin ligase complex that controls segregation of
chromosomes and exit from mitosis in eukaryotes. Results
in C.elegans show that the primary essential role of the
spindle assembly checkpoint is not in the chromosome
segregation process itself but rather in delaying
anaphase onset until all chromosomes are properly
attached to the spindle. the APC/C is likely to be
required for all metaphase-to-anaphase transitions in a
multicellular organism.
Length = 208
Score = 26.5 bits (59), Expect = 1.1
Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 8/55 (14%)
Query: 14 RWHNYQTSLLATLPQLLDGEDLTDVTLSAGGRHMKAHKV--VLSACSHYFKQLFK 66
+W SL LD E+L ++ S G +KAH++ V++ FK
Sbjct: 144 KWLKLLESLG------LDSEELEELLESLGSLLLKAHELLWVINEELKQFKAFLN 192
>gnl|CDD|188647 cd05396, An_peroxidase_like, Animal heme peroxidases and related
proteins. A diverse family of enzymes, which includes
prostaglandin G/H synthase, thyroid peroxidase,
myeloperoxidase, linoleate diol synthase,
lactoperoxidase, peroxinectin, peroxidasin, and others.
Despite its name, this family is not restricted to
metazoans: members are found in fungi, plants, and
bacteria as well.
Length = 370
Score = 25.9 bits (57), Expect = 2.3
Identities = 8/23 (34%), Positives = 8/23 (34%)
Query: 13 LRWHNYQTSLLATLPQLLDGEDL 35
LR HN L D E L
Sbjct: 89 LREHNRLADRLKKEHPEWDDERL 111
>gnl|CDD|233843 TIGR02390, RNA_pol_rpoA1, DNA-directed RNA polymerase subunit A'.
This family consists of the archaeal A' subunit of the
DNA-directed RNA polymerase. The example from
Methanocaldococcus jannaschii contains an intein.
Length = 867
Score = 25.4 bits (56), Expect = 3.2
Identities = 9/33 (27%), Positives = 12/33 (36%)
Query: 21 SLLATLPQLLDGEDLTDVTLSAGGRHMKAHKVV 53
L Q GED D S G+ + K+
Sbjct: 835 DTRGNLIQFKYGEDGVDPMKSDHGKPVDVKKIF 867
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 0.130 0.388
Gapped
Lambda K H
0.267 0.0732 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,546,139
Number of extensions: 249305
Number of successful extensions: 244
Number of sequences better than 10.0: 1
Number of HSP's gapped: 244
Number of HSP's successfully gapped: 7
Length of query: 76
Length of database: 10,937,602
Length adjustment: 46
Effective length of query: 30
Effective length of database: 8,897,318
Effective search space: 266919540
Effective search space used: 266919540
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)