RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9170
(94 letters)
>gnl|CDD|241132 cd12688, RRM1_PTBP1_like, RNA recognition motif 1 in
polypyrimidine tract-binding protein 1 (PTB or hnRNP I)
and similar proteins. This subfamily corresponds to
the RRM1 of polypyrimidine tract-binding protein 1 (PTB
or hnRNP I), polypyrimidine tract-binding protein 2
(PTBP2 or nPTB), regulator of differentiation 1 (Rod1),
and similar proteins found in Metazoa. PTB is an
important negative regulator of alternative splicing in
mammalian cells and functions at several aspects of
mRNA metabolism, including mRNA localization,
stabilization, polyadenylation, and translation. PTBP2
is highly homologous to PTB and is perhaps specific to
the vertebrates. Unlike PTB, PTBP2 is enriched in the
brain and in some neural cell lines. It binds more
stably to the downstream control sequence (DCS) RNA
than PTB does but is a weaker repressor of splicing in
vitro. PTBP2 also greatly enhances the binding of two
other proteins, heterogeneous nuclear ribonucleoprotein
(hnRNP) H and KH-type splicing-regulatory protein
(KSRP), to the DCS RNA. The binding properties of PTBP2
and its reduced inhibitory activity on splicing imply
roles in controlling the assembly of other
splicing-regulatory proteins. PTBP2 also contains four
RRMs. ROD1 coding protein Rod1 is a mammalian PTB
homolog of a regulator of differentiation in the
fission yeast Schizosaccharomyces pombe, where the nrd1
gene encodes an RNA binding protein and negatively
regulates the onset of differentiation. ROD1 is
predominantly expressed in hematopoietic cells or
organs. It may play a role controlling differentiation
in mammals. All members in this family contain four RNA
recognition motifs (RRM), also known as RBD (RNA
binding domain) or RNP (ribonucleoprotein domain). .
Length = 81
Score = 78.6 bits (194), Expect = 6e-21
Identities = 32/44 (72%), Positives = 35/44 (79%)
Query: 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTD 51
QAFLEMADE AA TMV Y+T LRGR VYVQ+SNH+ELKTD
Sbjct: 38 QAFLEMADEEAAVTMVNYYTYVTPNLRGRPVYVQYSNHRELKTD 81
>gnl|CDD|241221 cd12777, RRM1_PTBP1, RNA recognition motif 1 in vertebrate
polypyrimidine tract-binding protein 1 (PTB). This
subgroup corresponds to the RRM1 of PTB, also known as
58 kDa RNA-binding protein PPTB-1 or heterogeneous
nuclear ribonucleoprotein I (hnRNP I), an important
negative regulator of alternative splicing in mammalian
cells. PTB also functions at several other aspects of
mRNA metabolism, including mRNA localization,
stabilization, polyadenylation, and translation. PTB
contains four RNA recognition motifs (RRM), also known
as RBD (RNA binding domain) or RNP (ribonucleoprotein
domain). RRM1 and RRM2 are independent from each other
and separated by flexible linkers. By contrast, there
is an unusual and conserved interdomain interaction
between RRM3 and RRM4. It is widely held that only RRMs
3 and 4 are involved in RNA binding and RRM2 mediates
PTB homodimer formation. However, new evidence shows
that the RRMs 1 and 2 also contribute substantially to
RNA binding. Moreover, PTB may not always dimerize to
repress splicing. It is a monomer in solution. .
Length = 81
Score = 64.7 bits (157), Expect = 2e-15
Identities = 27/44 (61%), Positives = 35/44 (79%)
Query: 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTD 51
QAFLEM E AA+TMV Y+++ LRG+ +Y+Q+SNHKELKTD
Sbjct: 38 QAFLEMNTEEAANTMVNYYSSVTPVLRGQPIYIQYSNHKELKTD 81
>gnl|CDD|241222 cd12778, RRM1_PTBP2, RNA recognition motif 1 in vertebrate
polypyrimidine tract-binding protein 2 (PTBP2). This
subgroup corresponds to the RRM1 of PTBP2, also known
as neural polypyrimidine tract-binding protein or
neurally-enriched homolog of PTB (nPTB), highly
homologous to polypyrimidine tract binding protein
(PTB) and perhaps specific to the vertebrates. Unlike
PTB, PTBP2 is enriched in the brain and in some neural
cell lines. It binds more stably to the downstream
control sequence (DCS) RNA than PTB does but is a
weaker repressor of splicing in vitro. PTBP2 also
greatly enhances the binding of two other proteins,
heterogeneous nuclear ribonucleoprotein (hnRNP) H and
KH-type splicing-regulatory protein (KSRP), to the DCS
RNA. The binding properties of PTBP2 and its reduced
inhibitory activity on splicing imply roles in
controlling the assembly of other splicing-regulatory
proteins. PTBP2 contains four RNA recognition motifs
(RRMs), also known as RBD (RNA binding domain) or RNP
(ribonucleoprotein domain). .
Length = 82
Score = 63.2 bits (153), Expect = 7e-15
Identities = 27/44 (61%), Positives = 33/44 (75%)
Query: 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTD 51
QAFLE+A E AA TMV Y+T LR + +Y+Q+SNHKELKTD
Sbjct: 39 QAFLELATEEAAITMVNYYTAVTPHLRNQPIYIQYSNHKELKTD 82
>gnl|CDD|241223 cd12779, RRM1_ROD1, RNA recognition motif 1 in vertebrate
regulator of differentiation 1 (Rod1). This subgroup
corresponds to the RRM1 of ROD1 coding protein Rod1, a
mammalian polypyrimidine tract binding protein (PTB)
homolog of a regulator of differentiation in the
fission yeast Schizosaccharomyces pombe, where the nrd1
gene encodes an RNA binding protein that negatively
regulates the onset of differentiation. ROD1 is
predominantly expressed in hematopoietic cells or
organs. It might play a role controlling
differentiation in mammals. Rod1 contains four repeats
of RNA recognition motifs (RRM), also known as RBD (RNA
binding domain) or RNP (ribonucleoprotein domain) and
does have RNA binding activities. .
Length = 90
Score = 61.7 bits (149), Expect = 3e-14
Identities = 28/44 (63%), Positives = 33/44 (75%)
Query: 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTD 51
QAFLEMA E AA TMV Y+T LR + VY+Q+SNH+ELKTD
Sbjct: 43 QAFLEMASEEAAVTMVNYYTPITPHLRSQPVYIQYSNHRELKTD 86
>gnl|CDD|233508 TIGR01649, hnRNP-L_PTB, hnRNP-L/PTB/hephaestus splicing factor
family. Included in this family of heterogeneous
ribonucleoproteins are PTB (polypyrimidine tract
binding protein ) and hnRNP-L. These proteins contain
four RNA recognition motifs (rrm: pfam00067).
Length = 481
Score = 62.9 bits (153), Expect = 4e-13
Identities = 14/50 (28%), Positives = 24/50 (48%)
Query: 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHSNA 57
QA +E DE +A V + T+ +RG+ + +S +E+K D
Sbjct: 40 QALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQEIKRDGNSDFD 89
>gnl|CDD|240867 cd12421, RRM1_PTBP1_hnRNPL_like, RNA recognition motif in
polypyrimidine tract-binding protein 1 (PTB or hnRNP
I), heterogeneous nuclear ribonucleoprotein L
(hnRNP-L), and similar proteins. This subfamily
corresponds to the RRM1 of the majority of family
members that include polypyrimidine tract-binding
protein 1 (PTB or hnRNP I), polypyrimidine
tract-binding protein 2 (PTBP2 or nPTB), regulator of
differentiation 1 (Rod1), heterogeneous nuclear
ribonucleoprotein L (hnRNP-L), heterogeneous nuclear
ribonucleoprotein L-like (hnRNP-LL), polypyrimidine
tract-binding protein homolog 3 (PTBPH3),
polypyrimidine tract-binding protein homolog 1 and 2
(PTBPH1 and PTBPH2), and similar proteins. PTB is an
important negative regulator of alternative splicing in
mammalian cells and also functions at several other
aspects of mRNA metabolism, including mRNA
localization, stabilization, polyadenylation, and
translation. PTBP2 is highly homologous to PTB and is
perhaps specific to the vertebrates. Unlike PTB, PTBP2
is enriched in the brain and in some neural cell lines.
It binds more stably to the downstream control sequence
(DCS) RNA than PTB does but is a weaker repressor of
splicing in vitro. PTBP2 also greatly enhances the
binding of two other proteins, heterogeneous nuclear
ribonucleoprotein (hnRNP) H and KH-type
splicing-regulatory protein (KSRP), to the DCS RNA. The
binding properties of PTBP2 and its reduced inhibitory
activity on splicing imply roles in controlling the
assembly of other splicing-regulatory proteins. Rod1 is
a mammalian polypyrimidine tract binding protein (PTB)
homolog of a regulator of differentiation in the
fission yeast Schizosaccharomyces pombe, where the nrd1
gene encodes an RNA binding protein negatively
regulates the onset of differentiation. ROD1 is
predominantly expressed in hematopoietic cells or
organs. It might play a role controlling
differentiation in mammals. hnRNP-L is a higher
eukaryotic specific subunit of human KMT3a (also known
as HYPB or hSet2) complex required for histone H3
Lys-36 trimethylation activity. It plays both, nuclear
and cytoplasmic, roles in mRNA export of intronless
genes, IRES-mediated translation, mRNA stability, and
splicing. hnRNP-LL protein plays a critical and unique
role in the signal-induced regulation of CD45 and acts
as a global regulator of alternative splicing in
activated T cells. The family also includes
polypyrimidine tract binding protein homolog 3 (PTBPH3)
found in plant. Although its biological roles remain
unclear, PTBPH3 shows significant sequence similarity
to other family members, all of which contain four RNA
recognition motifs (RRM), also known as RBD (RNA
binding domain) or RNP (ribonucleoprotein domain).
Although their biological roles remain unclear, both
PTBPH1 and PTBPH2 show significant sequence similarity
to PTB. However, in contrast to PTB, they have three
RRMs. In addition, this family also includes
RNA-binding motif protein 20 (RBM20) that is an
alternative splicing regulator associated with dilated
cardiomyopathy (DCM) and contains only one RRM. .
Length = 74
Score = 52.2 bits (126), Expect = 1e-10
Identities = 19/38 (50%), Positives = 26/38 (68%)
Query: 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNH 45
QA +EM +A +MV Y+ T A +RGR VY+Q+SNH
Sbjct: 37 QALVEMDSVESAKSMVDYYLTVPALIRGRRVYIQYSNH 74
>gnl|CDD|241130 cd12686, RRM1_PTBPH1_PTBPH2, RNA recognition motif 1 in plant
polypyrimidine tract-binding protein homolog 1 and 2
(PTBPH1 and PTBPH2). This subfamily corresponds to the
RRM1 of PTBPH1 and PTBPH2. Although their biological
roles remain unclear, PTBPH1 and PTBPH2 show
significant sequence similarity to polypyrimidine tract
binding protein (PTB) that is an important negative
regulator of alternative splicing in mammalian cells
and also functions at several other aspects of mRNA
metabolism, including mRNA localization, stabilization,
polyadenylation, and translation. Both, PTBPH1 and
PTBPH2, contain three RNA recognition motifs (RRM),
also known as RBD (RNA binding domain) or RNP
(ribonucleoprotein domain). .
Length = 81
Score = 42.2 bits (99), Expect = 1e-06
Identities = 19/39 (48%), Positives = 27/39 (69%), Gaps = 2/39 (5%)
Query: 8 QAFLEMADECAASTMVTYFTTCV--AQLRGRAVYVQFSN 44
QAF+E AD A MV+Y+ + AQ+RG+ VY+Q+SN
Sbjct: 42 QAFVEFADLNQAIAMVSYYASSSEPAQVRGKTVYLQYSN 80
>gnl|CDD|241131 cd12687, RRM1_PTBPH3, RNA recognition motif 1 in plant
polypyrimidine tract-binding protein homolog 3
(PTBPH3). This subfamily corresponds to the RRM1 of
PTBPH3. Although its biological roles remain unclear,
PTBPH3 shows significant sequence similarity to
polypyrimidine tract binding protein (PTB) that is an
important negative regulator of alternative splicing in
mammalian cells and also functions at several other
aspects of mRNA metabolism, including mRNA
localization, stabilization, polyadenylation, and
translation. Like PTB, PTBPH3 contains four RNA
recognition motifs (RRM), also known as RBD (RNA
binding domain) or RNP (ribonucleoprotein domain). .
Length = 75
Score = 41.9 bits (98), Expect = 1e-06
Identities = 18/38 (47%), Positives = 26/38 (68%)
Query: 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNH 45
QA L+M D +A + + Y+TT +RGR VY+QFS+H
Sbjct: 38 QALLQMQDVSSAISALQYYTTVQPSVRGRNVYIQFSSH 75
>gnl|CDD|206064 pfam13893, RRM_5, RNA recognition motif. (a.k.a. RRM, RBD, or RNP
domain). The RRM motif is probably diagnostic of an
RNA binding protein. RRMs are found in a variety of RNA
binding proteins, including various hnRNP proteins,
proteins implicated in regulation of alternative
splicing, and protein components of snRNPs. The motif
also appears in a few single stranded DNA binding
proteins.
Length = 56
Score = 32.5 bits (75), Expect = 0.003
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFS 43
AF+E + E AA V Y + GR + V +S
Sbjct: 23 FAFVEFSTEEAAEKAVQYLNGVL--FGGRPLRVDYS 56
>gnl|CDD|241158 cd12714, RRM1_MATR3, RNA recognition motif 1 in vertebrate
matrin-3. This subgroup corresponds to the RRM1 of
Matrin 3 (MATR3 or P130), a highly conserved inner
nuclear matrix protein with a bipartite nuclear
localization signal (NLS), two zinc finger domains
predicted to bind DNA, and two RNA recognition motifs
(RRM), also termed RBDs (RNA binding domains) or RNPs
(ribonucleoprotein domains), that are known to interact
with RNA. MATR3 has been implicated in various
biological processes. It is involved in RNA processing
by interacting with other nuclear proteins to anchor
hyperedited RNAs to the nuclear matrix. It plays a role
in mRNA stabilization through maintaining the stability
of certain mRNA species. Besides, it modulates the
activity of proximal promoters by binding to highly
repetitive sequences of matrix/scaffold attachment
region (MAR/SAR). The phosphorylation of MATR3 is
assumed to cause neuronal death. It is phosphorylated
by the protein kinase ATM, which activates the cellular
response to double strand breaks in the DNA. Its
phosphorylation by protein kinase A (PKA) is
responsible for the activation of the
N-methyl-d-aspartic acid (NMDA) receptor. Furthermore,
MATR3 has been identified as both a Ca2+-dependent
CaM-binding protein and a downstream substrate of
caspases. Additional research indicates that matrin 3
also binds Rev/Rev responsive element (RRE)-containing
viral RNA and functions as a cofactor that mediates the
post-transcriptional regulation of HIV-1. .
Length = 76
Score = 30.5 bits (69), Expect = 0.033
Identities = 15/36 (41%), Positives = 20/36 (55%)
Query: 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFS 43
+AFLEM+ A MV Y+ T A + G+ V V S
Sbjct: 39 EAFLEMSTHEEAVAMVNYYQTKPALVFGKPVRVYLS 74
>gnl|CDD|240882 cd12436, RRM1_2_MATR3_like, RNA recognition motif 1 and 2 in the
matrin 3 family of nuclear proteins. This subfamily
corresponds to the RRM of the matrin 3 family of
nuclear proteins consisting of Matrin 3 (MATR3),
nuclear protein 220 (NP220) and similar proteins. MATR3
is a highly conserved inner nuclear matrix protein that
has been implicated in various biological processes.
NP220 is a large nucleoplasmic DNA-binding protein that
binds to cytidine-rich sequences, such as CCCCC (G/C),
in double-stranded DNA (dsDNA). Both, Matrin 3 and
NP220, contain two RNA recognition motif (RRM), also
termed RBDs (RNA binding domains) or RNPs
(ribonucleoprotein domains), and a Cys2-His2 zinc
finger-like motif at the C-terminal region. .
Length = 76
Score = 29.5 bits (67), Expect = 0.061
Identities = 10/37 (27%), Positives = 20/37 (54%)
Query: 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSN 44
+AF+EM A +V+++ T + G+++ V S
Sbjct: 39 KAFIEMESPEDAQALVSFYKTYPLTIGGKSIKVALST 75
>gnl|CDD|241129 cd12685, RRM_RBM20, RNA recognition motif of vertebrate
RNA-binding protein 20 (RBM20). This subfamily
corresponds to the RRM of RBM20, an alternative
splicing regulator associated with dilated
cardiomyopathy (DCM). It contains only one copy of
RNA-recognition motif (RRM), also known as RBD (RNA
binding domain) or RNP (ribonucleoprotein domain). .
Length = 76
Score = 28.1 bits (62), Expect = 0.23
Identities = 14/36 (38%), Positives = 19/36 (52%)
Query: 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFS 43
QAFLEMA AA MV Y+ A + + ++ S
Sbjct: 39 QAFLEMAYTEAAQAMVQYYQEKPAMINDEKLLIRMS 74
>gnl|CDD|241160 cd12716, RRM1_2_NP220, RNA recognition motif 1 and 2 in
vertebrate nuclear protein 220 (NP220). This subgroup
corresponds to RRM1 and RRM2 of NP220, also termed zinc
finger protein 638 (ZN638), or cutaneous T-cell
lymphoma-associated antigen se33-1, or zinc finger
matrin-like protein, a large nucleoplasmic DNA-binding
protein that binds to cytidine-rich sequences, such as
CCCCC (G/C), in double-stranded DNA (dsDNA). NP220
contains multiple domains, including MH1, MH2, and MH3,
domains homologous to the acidic nuclear protein matrin
3; RS, an arginine/serine-rich domain commonly found in
pre-mRNA splicing factors; PstI-HindIII, a domain
essential for DNA binding; acidic repeat, a domain with
nine repeats of the sequence LVTVDEVIEEEDL; and a
Cys2-His2 zinc finger-like motif that is also present
in matrin 3. It may be involved in packaging,
transferring, or processing transcripts. This subgroup
corresponds to the domain of MH2 that contains two
tandem RNA recognition motifs (RRMs), also termed RBDs
(RNA binding domains) or RNPs (ribonucleoprotein
domains).
Length = 76
Score = 27.1 bits (60), Expect = 0.53
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYV 40
+A+LEM ++ AA MV YF T ++G+ V +
Sbjct: 39 KAYLEMNNKEAAEAMVKYFETTPVLVKGKQVKI 71
>gnl|CDD|132842 cd07203, cPLA2_Fungal_PLB, Fungal Phospholipase B-like; cPLA2
GrpIVA homologs; catalytic domain. Fungal phospholipase
B are Group IV cPLA2 homologs. Aspergillus PLA2 is
Ca-dependent, yet it does not contain a C2 domain. PLB
deacylates both sn-1 and sn-2 chains of phospholipids
and are abundantly expressed in fungi. It shows
lysophospholipase (lysoPL) and transacylase activities.
The active site residues from cPLA2 are also conserved
in PLB. Like cPLA2, PLB also has a consensus sequence of
Sm-X-Nu-Sm (Sm = small residue, X = any residue and Nu =
nucleophile). It includes PLB1 from Schizosaccharomyces
pombe, PLB2 from Candida glabrata, and PLB3 from
Saccharomyces cerevisiae. PLB1, PLB2, and PLB3 show PLB
and lysoPL activities; PLB3 is specific for
phosphoinositides.
Length = 552
Score = 28.1 bits (63), Expect = 0.64
Identities = 11/33 (33%), Positives = 12/33 (36%), Gaps = 3/33 (9%)
Query: 2 YDYDEIQAFLEMADECA---ASTMVTYFTTCVA 31
Y E Q + E A T F TCVA
Sbjct: 484 YTDSERQGMILNGFESATRNNLTNDDEFATCVA 516
>gnl|CDD|129983 TIGR00905, 2A0302, transporter, basic amino acid/polyamine
antiporter (APA) family. This family includes several
families of antiporters that, rather commonly, are
encoded next to decarboxylases that convert one of the
antiporter substrates into the other. This arrangement
allows a cycle that can remove proteins from the
cytoplasm and thereby protect against acidic conditions
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 473
Score = 26.9 bits (60), Expect = 1.4
Identities = 16/87 (18%), Positives = 31/87 (35%), Gaps = 19/87 (21%)
Query: 9 AFLEMADECAASTMVTYFTTCVAQLR--GRAVYVQFSNHKELKTDQTHSNALLLHLTIGI 66
A+ + +V Y + L+ Y + N K L +G+
Sbjct: 355 AYNVLVSLAVVMILVPYLLSAAYLLKLAKVGTYPKIKNRK--------------ALIVGV 400
Query: 67 ILRPATHYQVHLIRSACQVYLIVCVLI 93
I A Y + L+ +A YL++ ++
Sbjct: 401 I---ACVYSIWLLYAAGLKYLLLGFIL 424
>gnl|CDD|241133 cd12689, RRM1_hnRNPL_like, RNA recognition motif 1 in
heterogeneous nuclear ribonucleoprotein L (hnRNP-L) and
similar proteins. This subfamily corresponds to the
RRM1 of heterogeneous nuclear ribonucleoprotein L
(hnRNP-L), heterogeneous nuclear ribonucleoprotein
L-like (hnRNP-LL), and similar proteins. hnRNP-L is a
higher eukaryotic specific subunit of human KMT3a (also
known as HYPB or hSet2) complex required for histone H3
Lys-36 trimethylation activity. It plays both, nuclear
and cytoplasmic, roles in mRNA export of intronless
genes, IRES-mediated translation, mRNA stability, and
splicing. hnRNP-LL plays a critical and unique role in
the signal-induced regulation of CD45 and acts as a
global regulator of alternative splicing in activated T
cells. It is closely related in domain structure and
sequence to hnRNP-L, which contains three
RNA-recognition motifs (RRMs), also known as RBD (RNA
binding domain) or RNP (ribonucleoprotein domain). .
Length = 80
Score = 25.8 bits (57), Expect = 2.1
Identities = 11/41 (26%), Positives = 17/41 (41%)
Query: 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKEL 48
QA +E D A V + + GR Y +S +E+
Sbjct: 40 QALVEFEDISDAKACVNHAQQNPVYIAGRQAYFNYSTSQEI 80
>gnl|CDD|235264 PRK04247, PRK04247, hypothetical protein; Provisional.
Length = 238
Score = 26.0 bits (58), Expect = 2.9
Identities = 12/35 (34%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 3 DYDEIQAFLEMADECAASTMVTYFTTCVAQLRGRA 37
+E LE A E +VT F C + GRA
Sbjct: 10 SIEEAADLLEEAIE--KRALVTIFGRCEVEYEGRA 42
>gnl|CDD|224552 COG1637, COG1637, Predicted nuclease of the RecB family [DNA
replication, recombination, and repair].
Length = 253
Score = 25.4 bits (56), Expect = 5.4
Identities = 9/33 (27%), Positives = 12/33 (36%), Gaps = 2/33 (6%)
Query: 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRA 37
+E LE A +V C + GRA
Sbjct: 13 EEAAQLLEDAP--RQGQVVVVIAVCEVEYEGRA 43
>gnl|CDD|215441 PLN02825, PLN02825, amino-acid N-acetyltransferase.
Length = 515
Score = 25.1 bits (55), Expect = 6.3
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 57 ALLLHLTIGIILRPATHYQV 76
+LL L I +L P TH Q+
Sbjct: 42 SLLHGLGIKFVLVPGTHVQI 61
>gnl|CDD|180542 PRK06358, PRK06358, threonine-phosphate decarboxylase; Provisional.
Length = 354
Score = 25.0 bits (55), Expect = 8.4
Identities = 13/44 (29%), Positives = 17/44 (38%)
Query: 39 YVQFSNHKELKTDQTHSNALLLHLTIGIILRPATHYQVHLIRSA 82
Y S K +K + N + L I LR + LIRS
Sbjct: 278 YNGLSEFKGIKVYKPSVNFIFFKLEKPIDLRKELLKKGILIRSC 321
>gnl|CDD|237619 PRK14135, recX, recombination regulator RecX; Provisional.
Length = 263
Score = 24.8 bits (55), Expect = 9.2
Identities = 5/12 (41%), Positives = 8/12 (66%)
Query: 2 YDYDEIQAFLEM 13
+ YD+I +FL
Sbjct: 247 FSYDDIDSFLRE 258
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
0.330 0.137 0.411
Gapped
Lambda K H
0.267 0.0828 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,558,025
Number of extensions: 346608
Number of successful extensions: 360
Number of sequences better than 10.0: 1
Number of HSP's gapped: 358
Number of HSP's successfully gapped: 28
Length of query: 94
Length of database: 10,937,602
Length adjustment: 61
Effective length of query: 33
Effective length of database: 8,232,008
Effective search space: 271656264
Effective search space used: 271656264
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 53 (24.0 bits)