RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13019
(87 letters)
>gnl|CDD|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit.
Transcription initiation factor IIA (TFIIA) is a
heterotrimer, the three subunits being known as alpha,
beta, and gamma, in order of molecular weight. The N and
C-terminal domains of the gamma subunit are represented
in pfam02268 and pfam02751, respectively. This family
represents the precursor that yields both the alpha and
beta subunits. The TFIIA heterotrimer is an essential
general transcription initiation factor for the
expression of genes transcribed by RNA polymerase II.
Together with TFIID, TFIIA binds to the promoter region;
this is the first step in the formation of a
pre-initiation complex (PIC). Binding of the rest of the
transcription machinery follows this step. After
initiation, the PIC does not completely dissociate from
the promoter. Some components, including TFIIA, remain
attached and re-initiate a subsequent round of
transcription.
Length = 332
Score = 27.8 bits (62), Expect = 0.68
Identities = 14/69 (20%), Positives = 25/69 (36%), Gaps = 3/69 (4%)
Query: 15 NNDYNEFMNDLEEDVL-YRQNVNIYKAGPEIPVDANDINTEDEDPDAPRITLEEMLDDLT 73
+ M L++ + + A + ++ + D+D D I E LDD
Sbjct: 216 GAEGGGAMKVLKQPKKQAKSSKRRTIAQIDGIDSDDEGDGSDDDDDEDAI--ESDLDDSD 273
Query: 74 IDDVDMEEE 82
D D + E
Sbjct: 274 DDVSDEDGE 282
>gnl|CDD|215059 PLN00111, PLN00111, accumulation of photosystem one; Provisional.
Length = 399
Score = 27.3 bits (61), Expect = 1.0
Identities = 18/60 (30%), Positives = 26/60 (43%)
Query: 24 DLEEDVLYRQNVNIYKAGPEIPVDANDINTEDEDPDAPRITLEEMLDDLTIDDVDMEEEV 83
D+ E R+ IY+ G I ++ D P+ P L LDD I+ EEE+
Sbjct: 204 DIPEYPTKRRTKPIYRIGGRIVDFEDESEEPDPPPEGPSSPLLTELDDSEIEAPSSEEEL 263
>gnl|CDD|219573 pfam07781, Reovirus_Mu2, Reovirus minor core protein Mu-2. This
family represents the Reovirus core protein Mu-2. Mu-2
is a microtubule associated protein and is thought to
play a key role in the formation and structural
organisation of reovirus inclusion bodies.
Length = 735
Score = 26.4 bits (58), Expect = 1.8
Identities = 11/34 (32%), Positives = 14/34 (41%), Gaps = 2/34 (5%)
Query: 44 IPVDANDINTEDEDPDAPRITLEEMLDDLTIDDV 77
P D D+ D P LEE+ LT D+
Sbjct: 29 PPKDLQDVAVYD--PSWLLRQLEEISSGLTASDL 60
>gnl|CDD|147759 pfam05782, ECM1, Extracellular matrix protein 1 (ECM1). This
family consists of several eukaryotic extracellular
matrix protein 1 (ECM1) sequences. ECM1 has been shown
to regulate endochondral bone formation, stimulate the
proliferation of endothelial cells and induce
angiogenesis. Mutations in the ECM1 gene can cause
lipoid proteinosis, a disorder which causes generalised
thickening of skin, mucosae and certain viscera.
Classical features include beaded eyelid papules and
laryngeal infiltration leading to hoarseness.
Length = 419
Score = 25.7 bits (56), Expect = 3.1
Identities = 14/36 (38%), Positives = 18/36 (50%)
Query: 26 EEDVLYRQNVNIYKAGPEIPVDANDINTEDEDPDAP 61
EED N N+ KAGP +P +A + E P P
Sbjct: 92 EEDWPTFLNPNVDKAGPAVPQEAIPLQKELPPPQVP 127
>gnl|CDD|193565 cd08018, M20_Acy1_amhX_like, M20 Peptidase Aminoacylase 1 amhX_like
subfamily. Peptidase M20 family, Uncharacterized
subfamily of uncharacterized proteins predicted as
putative amidohydrolases, including the amhX gene
product from Bacillus subtilis. These are a class of
zinc binding homodimeric enzymes involved in hydrolysis
of N-acetylated proteins. N-terminal acetylation of
proteins is a widespread and highly conserved process
that is involved in protection and stability of
proteins. Several types of aminoacylases can be
distinguished on the basis of substrate specificity.
Aminoacylase 1 (ACY1) breaks down cytosolic aliphatic
N-acyl-alpha-amino acids (except L-aspartate),
especially N-acetyl-methionine and acetyl-glutamate into
L-amino acids and an acyl group. However, ACY1 can also
catalyze the reverse reaction, the synthesis of
acetylated amino acids. ACY1 may also play a role in
xenobiotic bioactivation as well as the inter-organ
processing of amino acid-conjugated xenobiotic
derivatives (S-substituted-N-acetyl-L-cysteine).
Length = 365
Score = 25.3 bits (56), Expect = 4.8
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 4/33 (12%)
Query: 1 MTDATNIVPDTASANND----YNEFMNDLEEDV 29
+TNI+PD AS + D NE M +L E V
Sbjct: 222 GGGSTNIIPDKASFSLDLRAQSNEAMEELIEKV 254
>gnl|CDD|235717 PRK06153, PRK06153, hypothetical protein; Provisional.
Length = 393
Score = 24.9 bits (55), Expect = 5.7
Identities = 10/34 (29%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 4 ATNIVPDTASANNDYNEFMNDLEEDVLYRQNVNI 37
T PD + F +D + DV Y N+ I
Sbjct: 314 VTLSTPDKRDHVDGRLPFSDDDDNDV-YSSNIQI 346
>gnl|CDD|193508 cd03887, M20_Acy1L2, M20 Peptidase Aminoacylase 1-like protein 2,
amidohydrolase family. Peptidase M20 family,
Aminoacylase 1-like protein 2 (ACY1L2; amidohydrolase)
subfamily. This group contains many uncharacterized
proteins predicted as amidohydrolases, including gene
products of abgA and abgB that catalyze the cleavage of
p-aminobenzoyl-glutamate, a folate catabolite in
Escherichia coli, to p-aminobenzoate and glutamate.
p-Aminobenzoyl-glutamate utilization is catalyzed by the
abg region gene product, AbgT. Aminoacylase 1 (ACY1)
proteins are a class of zinc binding homodimeric enzymes
involved in hydrolysis of N-acetylated proteins.
N-terminal acetylation of proteins is a widespread and
highly conserved process that is involved in the
protection and stability of proteins. Several types of
aminoacylases can be distinguished on the basis of
substrate specificity. ACY1 breaks down cytosolic
aliphatic N-acyl-alpha-amino acids (except L-aspartate),
especially N-acetyl-methionine and acetyl-glutamate into
L-amino acids and an acyl group. However, ACY1 can also
catalyze the reverse reaction, the synthesis of
acetylated amino acids. ACY1 may also play a role in
xenobiotic bioactivation as well as the inter-organ
processing of amino acid-conjugated xenobiotic
derivatives (S-substituted-N-acetyl-L-cysteine).
Length = 358
Score = 24.8 bits (55), Expect = 6.7
Identities = 12/45 (26%), Positives = 16/45 (35%), Gaps = 13/45 (28%)
Query: 3 DATNIVPDTASANNDYNEF------MNDLEEDVLYRQNVNIYKAG 41
DA N+VPD A E+ LEE L + +
Sbjct: 215 DAPNVVPDYAEV-----EYYVRAPTREYLEE--LVERVKKCAEGA 252
>gnl|CDD|193547 cd05672, M20_ACY1L2_like, M20 Peptidase Aminoacylase 1-like protein
2-like, amidohydrolase subfamily. Peptidase M20 family,
Aminoacylase 1-like protein 2 (ACY1L2;
amidohydrolase)-like subfamily. This group contains many
uncharacterized proteins predicted as amidohydrolases,
including gene products of abgA and abgB that catalyze
the cleavage of p-aminobenzoyl-glutamate, a folate
catabolite in Escherichia coli , to p-aminobenzoate and
glutamate. p-Aminobenzoyl-glutamate utilization is
catalyzed by the abg region gene product, AbgT.
Aminoacylase 1 (ACY1) proteins are a class of zinc
binding homodimeric enzymes involved in hydrolysis of
N-acetylated proteins. N-terminal acetylation of
proteins is a widespread and highly conserved process
that is involved in the protection and stability of
proteins. Several types of aminoacylases can be
distinguished on the basis of substrate specificity.
ACY1 breaks down cytosolic aliphatic N-acyl-alpha-amino
acids (except L-aspartate), especially
N-acetyl-methionine and acetyl-glutamate into L-amino
acids and an acyl group. However, ACY1 can also catalyze
the reverse reaction, the synthesis of acetylated amino
acids. ACY1 may also play a role in xenobiotic
bioactivation as well as the inter-organ processing of
amino acid-conjugated xenobiotic derivatives
(S-substituted-N-acetyl-L-cysteine).
Length = 358
Score = 24.7 bits (55), Expect = 7.9
Identities = 7/12 (58%), Positives = 8/12 (66%)
Query: 3 DATNIVPDTASA 14
A NI+PD A A
Sbjct: 213 KAPNIIPDYAEA 224
>gnl|CDD|220785 pfam10498, IFT57, Intra-flagellar transport protein 57. Eukaryotic
cilia and flagella are specialised organelles found at
the periphery of cells of diverse organisms.
Intra-flagellar transport (IFT) is required for the
assembly and maintenance of eukaryotic cilia and
flagella, and consists of the bidirectional movement of
large protein particles between the base and the distal
tip of the organelle. IFT particles contain multiple
copies of two distinct protein complexes, A and B, which
contain at least 6 and 11 protein subunits. IFT57 is
part of complex B but is not, however, required for the
core subunits to stay associated. This protein is known
as Huntington-interacting protein-1 in humans.
Length = 355
Score = 24.7 bits (54), Expect = 8.1
Identities = 18/66 (27%), Positives = 37/66 (56%), Gaps = 4/66 (6%)
Query: 22 MNDLEEDVLYRQNVNIYKAGPEIPVDANDINTEDEDPDAPRITLEEMLDDLTIDDVDMEE 81
++DL + L ++ + + P+ P + ++ DED DA I LEE+ +++ I++VD +E
Sbjct: 106 LDDLADAALKKKGFSFKR--PKYPNEEDEEENVDED-DAE-IILEEVEEEVEIEEVDDDE 161
Query: 82 EVTSDQ 87
+
Sbjct: 162 GTQETK 167
>gnl|CDD|239158 cd02757, MopB_Arsenate-R, This CD includes the respiratory
arsenate reductase, As(V), catalytic subunit (ArrA) and
other related proteins. These members belong to the
molybdopterin_binding (MopB) superfamily of proteins.
Length = 523
Score = 24.7 bits (54), Expect = 9.0
Identities = 7/19 (36%), Positives = 10/19 (52%)
Query: 55 DEDPDAPRITLEEMLDDLT 73
D DP I+ +E LD +
Sbjct: 71 DVDPKFVPISWDEALDTIA 89
>gnl|CDD|224926 COG2015, COG2015, Alkyl sulfatase and related hydrolases [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 655
Score = 24.3 bits (53), Expect = 9.4
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 60 APRITLEEMLDDLTIDDVDMEEEVT 84
AP +EE + LTID V+ E ++T
Sbjct: 255 APTKIIEETGETLTIDGVEFEFQMT 279
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
0.306 0.129 0.353
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,608,797
Number of extensions: 389084
Number of successful extensions: 301
Number of sequences better than 10.0: 1
Number of HSP's gapped: 298
Number of HSP's successfully gapped: 40
Length of query: 87
Length of database: 10,937,602
Length adjustment: 55
Effective length of query: 32
Effective length of database: 8,498,132
Effective search space: 271940224
Effective search space used: 271940224
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 53 (24.1 bits)