RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy434
(307 letters)
>gnl|CDD|238106 cd00182, TBOX, T-box DNA binding domain of the T-box family of
transcriptional regulators. The T-box family is an
ancient group that appears to play a critical role in
development in all animal species. These genes were
uncovered on the basis of similarity to the DNA binding
domain of murine Brachyury (T) gene product, the
defining feature of the family. Common features shared
by T-box family members are DNA-binding and
transcriptional regulatory activity, a role in
development and conserved expression patterns, most of
the known genes in all species being expressed in
mesoderm or mesoderm precursors.
Length = 188
Score = 228 bits (584), Expect = 2e-75
Identities = 82/122 (67%), Positives = 93/122 (76%), Gaps = 2/122 (1%)
Query: 132 SSWVVAGKADPISPPRIHVHPDSPASGAQWSKQVVSFDKLKLTNNQLDDNGHIILNSMHK 191
WVVAGKA+P PPR++VHPDSPA+GA W KQ VSFDKLKLTNN LD+NGHIILNSMHK
Sbjct: 67 GKWVVAGKAEPHLPPRVYVHPDSPATGAHWMKQPVSFDKLKLTNNTLDNNGHIILNSMHK 126
Query: 192 YQPRFHVVLLSPESNSASATSPFKTFLFPETMFTAVTAYQNHRITQLKIASNPFAKGFRE 251
YQPR H+V + S + +TF FPET F AVTAYQN ITQLKI +NPFAKGFR+
Sbjct: 127 YQPRLHIVEVDDSSP--FSWRLVQTFSFPETEFIAVTAYQNQEITQLKIDNNPFAKGFRD 184
Query: 252 CE 253
Sbjct: 185 NG 186
>gnl|CDD|216184 pfam00907, T-box, T-box. The T-box encodes a 180 amino acid domain
that binds to DNA. Genes encoding T-box proteins are
found in a wide range of animals, but not in other
kingdoms such as plants. Family members are all thought
to bind to the DNA consensus sequence TCACACCT. they are
found exclusively in the nucleus, and perform
DNA-binding and transcriptional activation/repression
roles. They are generally required for development of
the specific tissues they are expressed in, and
mutations in T-box genes are implicated in human
conditions such as DiGeorge syndrome and X-linked cleft
palate, which feature malformations.
Length = 182
Score = 217 bits (555), Expect = 4e-71
Identities = 81/122 (66%), Positives = 95/122 (77%), Gaps = 3/122 (2%)
Query: 131 SSSWVVAGKADPISPPRIHVHPDSPASGAQWSKQVVSFDKLKLTNNQLDDNGHIILNSMH 190
+ WVVAGKA+P PPR+++HPDSPA+GA W KQ VSFDK+KLTNN+LD NGHIILNSMH
Sbjct: 64 NGEWVVAGKAEPHPPPRVYIHPDSPATGAHWMKQPVSFDKVKLTNNKLDGNGHIILNSMH 123
Query: 191 KYQPRFHVVLLSPESNSASATSPFKTFLFPETMFTAVTAYQNHRITQLKIASNPFAKGFR 250
KYQPR H+V + ES S +TF FPET F AVTAYQN IT+LKI +NPFAKGFR
Sbjct: 124 KYQPRLHIVRVDDESPSQRT---VRTFSFPETQFIAVTAYQNEEITKLKIDNNPFAKGFR 180
Query: 251 EC 252
+
Sbjct: 181 DA 182
>gnl|CDD|214656 smart00425, TBOX, Domain first found in the mice T locus
(Brachyury) protein.
Length = 190
Score = 201 bits (514), Expect = 8e-65
Identities = 82/126 (65%), Positives = 95/126 (75%), Gaps = 4/126 (3%)
Query: 131 SSSWVVAGKADPISPPRIHVHPDSPASGAQWSKQVVSFDKLKLTNNQLDDNGH--IILNS 188
+ WVVAGKA+P P R++VHPDSPA+GA W KQ VSFDK+KLTNNQ D NGH IILNS
Sbjct: 65 NGKWVVAGKAEPHMPSRVYVHPDSPATGAHWMKQPVSFDKVKLTNNQSDKNGHLQIILNS 124
Query: 189 MHKYQPRFHVVLLSPESNSASATSPFKTFLFPETMFTAVTAYQNHRITQLKIASNPFAKG 248
MHKYQPR H+V + S S FKTF+FPET F AVTAYQN +IT+LKI +NPFAKG
Sbjct: 125 MHKYQPRLHIVEVDDISK--EILSQFKTFVFPETQFIAVTAYQNQKITKLKIDNNPFAKG 182
Query: 249 FRECEP 254
FR+
Sbjct: 183 FRDQGR 188
>gnl|CDD|99939 cd05507, Bromo_brd8_like, Bromodomain, brd8_like subgroup. In
mammals, brd8 (bromodomain containing 8) interacts with
the thyroid hormone receptor in a ligand-dependent
fashion and enhances thyroid hormone-dependent
activation from thyroid response elements. Brd8 is
thought to be a nuclear receptor coactivator.
Bromodomains are 110 amino acid long domains, that are
found in many chromatin associated proteins.
Bromodomains can interact specifically with acetylated
lysine.
Length = 104
Score = 28.1 bits (63), Expect = 2.1
Identities = 14/52 (26%), Positives = 21/52 (40%), Gaps = 14/52 (26%)
Query: 239 KIASNPFAKGFRECEPDDCSAET----LNQMQLSSPSDSQPLSPTIKRNINN 286
+AS+ +A F + +D + M LS TIK+NI N
Sbjct: 14 TLASHRYASVFLKPVTEDIAPGYHSVVYRPMDLS----------TIKKNIEN 55
>gnl|CDD|218184 pfam04632, FUSC, Fusaric acid resistance protein family. This
family includes a conserved region found in two
proteins associated with fusaric acid resistance,from
Burkholderia cepacia and Klebsiella oxytoca. These
proteins are likely to be membrane transporter
proteins.
Length = 649
Score = 29.1 bits (66), Expect = 3.1
Identities = 7/30 (23%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 60 FYPQRIMFVLGMGCFLDLSSY-SSLYQTFW 88
F ++F+L + ++ L + S L + F
Sbjct: 70 FVQAPLLFLLALALWIGLCTALSLLDRNFR 99
>gnl|CDD|183660 PRK12660, PRK12660, putative monovalent cation/H+ antiporter
subunit C; Reviewed.
Length = 114
Score = 27.8 bits (62), Expect = 3.7
Identities = 13/62 (20%), Positives = 24/62 (38%), Gaps = 6/62 (9%)
Query: 182 GHIILNSMHKYQPRFHVVLLSPESNSASATSPFKTFL------FPETMFTAVTAYQNHRI 235
G++I+ SM Y L++ + L F T F V Y+ +++
Sbjct: 39 GNLIIMSMGGYGSSRSEPLITGGNQLFVDPLLQAIVLTAIVIGFGMTAFLLVLVYRTYKV 98
Query: 236 TQ 237
T+
Sbjct: 99 TK 100
>gnl|CDD|216915 pfam02171, Piwi, Piwi domain. This domain is found in the protein
Piwi and its relatives. The function of this domain is
the dsRNA guided hydrolysis of ssRNA. Determination of
the crystal structure of Argonaute reveals that PIWI is
an RNase H domain, and identifies Argonaute as Slicer,
the enzyme that cleaves mRNA in the RNAi RISC complex.
In addition, Mg+2 dependence and production of 3'-OH and
5' phosphate products are shared characteristics of
RNaseH and RISC. The PIWI domain core has a tertiary
structure belonging to the RNase H family of enzymes.
RNase H fold proteins all have a five-stranded mixed
beta-sheet surrounded by helices. By analogy to RNase H
enzymes which cleave single-stranded RNA guided by the
DNA strand in an RNA/DNA hybrid, the PIWI domain can be
inferred to cleave single-stranded RNA, for example
mRNA, guided by double stranded siRNA.
Length = 296
Score = 28.0 bits (63), Expect = 5.5
Identities = 9/32 (28%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 101 KLYCTNKIVQINYKL--QNYKLPDIYFLLFLF 130
TN +++IN KL NY + +I + +
Sbjct: 43 PQTLTNVLLKINVKLGGLNYWIVEIPPKIDVI 74
>gnl|CDD|218315 pfam04892, VanZ, VanZ like family. This family contains several
examples of the VanZ protein, but also contains examples
of phosphotransbutyrylases.
Length = 132
Score = 26.9 bits (60), Expect = 8.7
Identities = 12/62 (19%), Positives = 22/62 (35%), Gaps = 12/62 (19%)
Query: 125 FLLFLFSSSWVVAGKADPISPPRIHVHPDSPASGAQWSKQVVSFDKLKLTNNQLDDNGHI 184
+F+ S V A + ++ P PA A LT+ + G++
Sbjct: 10 VWSVIFALSLQVLAWAFVSAVRSYNLVPF-PAGRAF-----------ILTDTFIQKLGNL 57
Query: 185 IL 186
+L
Sbjct: 58 LL 59
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
0.318 0.131 0.401
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,080,657
Number of extensions: 1357275
Number of successful extensions: 996
Number of sequences better than 10.0: 1
Number of HSP's gapped: 991
Number of HSP's successfully gapped: 14
Length of query: 307
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 210
Effective length of database: 6,635,264
Effective search space: 1393405440
Effective search space used: 1393405440
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: 59 (26.5 bits)