RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8046
(214 letters)
>gnl|CDD|190614 pfam03366, YEATS, YEATS family. We have named this family the
YEATS family, after `YNK7', `ENL', `AF-9', and `TFIIF
small subunit'. This family also contains the GAS41
protein. All these proteins are thought to have a
transcription stimulatory activity.
Length = 84
Score = 119 bits (302), Expect = 2e-35
Identities = 49/84 (58%), Positives = 63/84 (75%), Gaps = 1/84 (1%)
Query: 16 THEWKVYIKPYYKE-DLAKYIKKVSFKLHESYPVNVRILTKPPFEISETGWGEFELVIKI 74
TH+W V+++ E DL+ +IKKV+FKLHES+P VR +TKPPFE++ETGWGEFE+ IKI
Sbjct: 1 THKWTVFVRGLDNEGDLSYFIKKVTFKLHESFPNPVRTVTKPPFEVTETGWGEFEIPIKI 60
Query: 75 YFHDPNERPVTLYHMLKLFKTKDA 98
YF D NE+PVT+ H LKL
Sbjct: 61 YFVDSNEKPVTIQHDLKLHPEGYE 84
>gnl|CDD|227366 COG5033, TFG3, Transcription initiation factor IIF, auxiliary
subunit [Transcription].
Length = 225
Score = 94.5 bits (235), Expect = 5e-24
Identities = 46/133 (34%), Positives = 65/133 (48%), Gaps = 20/133 (15%)
Query: 15 HTHEWKVYIKPYYKEDLAKYIKKVSFKLHESYPVNVRILTKPPFEISETGWGEFELVIKI 74
HTH W V+++ KED+A +KKV FKLH ++ R + PPFEI ETGWGEF++ IKI
Sbjct: 34 HTHIWLVFVRAPGKEDIATIVKKVIFKLHPTFSNPTRTIESPPFEIKETGWGEFDIQIKI 93
Query: 75 YFHD-PNERPVTLYHMLKLFKTKDAACDATNSLLYN----------------EFYEEIIF 117
+F + E+ + Y F + A D + N + E F
Sbjct: 94 FFAEKAGEKTIHFYL---HFGDEPYAVDEPVDIPVNRPDLTSELSKSGEVESVYKREKRF 150
Query: 118 NEPTLTMYKTLSS 130
NEP + K L+
Sbjct: 151 NEPNIQALKLLNG 163
>gnl|CDD|215141 PLN02252, PLN02252, nitrate reductase [NADPH].
Length = 888
Score = 30.4 bits (69), Expect = 0.74
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 66 GEFELVIKIYFHDPNER 82
G FELVIK+YF + + +
Sbjct: 696 GHFELVIKVYFKNVHPK 712
>gnl|CDD|240480 cd12900, SPRY_PRY_Btn_TRIMs, PRY/SPRY domain in butyrophilins and
butyrophilins-like proteins, pyrin, as well as
tripartite motif-containing proteins (TRIM4, 5, 6, 11,
21, 22, 27, 30, 34, 38, 58, 60, 68, 75). This domain,
consisting of the distinct N-terminal PRY subdomain
followed by the SPRY subdomain, is found at the
C-terminus of pyrin, several tripartite motif-containing
proteins (TRIMs), as well as butyrophilin (Btns) and
butyrophilin-like (Btnl) family members, with the
exception of Btnl2. Btn and Btnl family members are
novel regulators of immune responses, with many of the
genes located within the MHC. They are implicated in
T-cell inhibition and modulation of epithelial cell-T
cell interactions. Expression of TRIM4 (also known as
ring finger protein 87 or RNF87) genes, including that
of CHCHD2 and PKIB, differs significantly in
Huntington's disease (HD), a prototypical genetic
disorder with delayed clinical onset, despite ubiquitous
expression of the mutated gene during development.
TRIM5-alpha is a cytoplasmic protein that recognizes the
incoming capsid (CA) protein of retroviruses and
potently inhibits virus infection in a species-specific
manner; it recognizes and interacts directly with HIV
CA, thus disrupting the ordered process of viral
uncoating, and subsequent reverse transcription and
virus replication, while species-specific differences
are determined by sequence variations within the
C-terminal B30.2/PRYSPRY domain. TRIM6 regulates the
transcriptional activity of proto-oncogene product Myc
during the maintenance of ES cell pluripotency,
suggesting that TRIM6 functions as a novel regulator for
Myc-mediated transcription in ES cells. TRIM11 is
involved in the function and development of the nervous
system and is overexpressed in high-grade gliomas and
promotes proliferation, invasion, migration and glial
tumor growth. TRIM21 (also known as RO52, SSA1 or RNF81)
is a major autoantigen in autoimmune diseases such as
rheumatoid arthritis, systemic lupus erythematosus, and
Sjorgen's syndrome. TRIM21 interacts with connexin 43
(Cx43) providing mechanisms for down-regulation of gap
junction (GJ) intercellular communication thus impacting
a variety of physiological processes. Expression of the
TRIM34 gene is up-regulated by interferon and is mapped
to chromosome 11p15, where it resides within a TRIM gene
cluster. TRIM30 alpha negatively regulates Toll-like
receptor (TLR)-mediated NF-kappa B activation by
targeting degradation of adaptors TAB2 and TAB3 that are
in complex with kinase TAK1. TRIM5 gene's closest human
paralogs are TRIM6, TRIM22 and TRIM34. It has also been
shown that the RBCC domains of TRIM6, 21 and 34 can
functionally replace the corresponding domains of
TRIM5alpha with respect to inhibition of HIV-1 infection
through binding of the chimeras to HIV-1 capsid
complexes. TRIM27 (also known as Ret finger protein, RFP
or RNF76) negatively regulates CD4 T-cells by
ubiquitinating and inhibiting the class II
phosphatidylinositol 3 kinase C2beta (PI3K-C2beta), a
kinase critical for KCa3.1 channel activation. It is
also a specific binding partner for NOD2, the
nucleotide-binding domain and leucine-rich repeat
containing gene family (NLR) member 2 involved in
mediating antimicrobial responses. It negatively
regulates NOD2-mediated signaling by degrading NOD2, and
therefore a potential target for therapeutic
intervention in NOD2-associated diseases such as
early-onset sarcoidosis and Blau syndrome. TRIM38
negatively regulates Toll-like receptor 3
(TLR3)-mediated type I interferon signaling by targeting
TIR domain-containing adaptor inducing IFN-beta (TRIF).
TRIM60 (also known as RNF33 or ring finger protein 33)
interacts with kinesin-2 family members 3A (KIF3A) and
3B (KIF3B) motor proteins known to transport cargos
along the microtubule, possibly contributing to
kinesin-dependent mobilization of specific cargos along
the microtubule. TRIM68 regulates ligand-dependent
transcription of androgen receptor in prostate cancer
cells; its overexpression causes an increase in
prostate-specific antigen (PSA), a reliable diagnostic
marker for prostate cancer, making TRIM68 a likely novel
diagnostic tool and a potentially therapeutic target.
The PRY/SPRY domain of pyrin, which is mutated in
familial Mediterranean fever patients, interacts with
inflammasome components and inhibits proIL-1beta
processing.
Length = 173
Score = 27.1 bits (61), Expect = 5.4
Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 5/30 (16%)
Query: 171 IGVYKDKISTKLFTHCDSYVLCPKNNFWQI 200
+GV ++ +S K L P+N FW I
Sbjct: 72 LGVCRESVSRKGKVP-----LSPENGFWVI 96
>gnl|CDD|180280 PRK05835, PRK05835, fructose-bisphosphate aldolase; Provisional.
Length = 307
Score = 27.2 bits (60), Expect = 6.7
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 119 EPTLTMYKTLSSTVPHTPASASLIAAHSVNFESAKASTLRG 159
+ + M K + PH P + L H FES + + G
Sbjct: 59 DMAVGMVKIMCERYPHIPVALHL--DHGTTFESCEKAVKAG 97
>gnl|CDD|188122 TIGR01264, tyr_amTase_E, tyrosine aminotransferase, eukaryotic.
This model describes tyrosine aminotransferase as found
in animals and Trypanosoma cruzi. It is the first enzyme
of a pathway of tyrosine degradation via homogentisate.
Several plant enzyme designated as probable tyrosine
aminotransferases are very closely related to an
experimentally demonstrated nicotianamine
aminotransferase, an enzyme in a siderophore (iron
uptake chelator) biosynthesis pathway. These plant
sequences are excluded from the model seed and score
between the trusted an noise cutoffs [Energy metabolism,
Amino acids and amines].
Length = 401
Score = 27.1 bits (60), Expect = 8.5
Identities = 9/28 (32%), Positives = 17/28 (60%)
Query: 106 LLYNEFYEEIIFNEPTLTMYKTLSSTVP 133
++ +E Y +++F+ T +LSS VP
Sbjct: 204 IIADEIYGDMVFSGATFEPVASLSSNVP 231
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 0.134 0.402
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,656,792
Number of extensions: 971656
Number of successful extensions: 846
Number of sequences better than 10.0: 1
Number of HSP's gapped: 844
Number of HSP's successfully gapped: 14
Length of query: 214
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 121
Effective length of database: 6,812,680
Effective search space: 824334280
Effective search space used: 824334280
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: 57 (25.6 bits)