RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5945
(568 letters)
>gnl|CDD|217617 pfam03567, Sulfotransfer_2, Sulfotransferase family. This family
includes a variety of sulfotransferase enzymes.
Chondroitin 6-sulfotransferase catalyzes the transfer of
sulfate to position 6 of the N-acetylgalactosamine
residue of chondroitin. This family also includes
Heparan sulfate 2-O-sulfotransferase (HS2ST) and Heparan
sulfate 6-sulfotransferase (HS6ST). Heparan sulfate (HS)
is a co-receptor for a number of growth factors,
morphogens, and adhesion proteins. HS biosynthetic
modifications may determine the strength and outcome of
HS-ligand interactions. Mice that lack HS2ST undergo
developmental failure only after midgestation,the most
dramatic effect being the complete failure of kidney
development. Heparan sulphate 6- O -sulfotransferase
(HS6ST) catalyzes the transfer of sulphate from
adenosine 3'-phosphate, 5'-phosphosulphate to the 6th
position of the N -sulphoglucosamine residue in heparan
sulphate.
Length = 238
Score = 159 bits (405), Expect = 2e-45
Identities = 70/209 (33%), Positives = 89/209 (42%), Gaps = 31/209 (14%)
Query: 73 DKKHKLLYCYVPKVACTNWKRIFLILVGQI-NTTDPSSIPADVAH-------KLTMNYKL 124
HK++YC VPKVA T+WKRI +L G+ D SI AH L
Sbjct: 1 APDHKIVYCRVPKVASTSWKRILCVLYGENKFLADNRSINDTWAHSKRSCGWSHGSFRDL 60
Query: 125 SNFSKDEIHHFLESYTKFLFVRHPFERLVSAFHNKLEQSYSSSKYFQSRFGKHIIKTIRT 184
S + EI L Y KF FVR PFER VSA+ NK + S + R
Sbjct: 61 SELTSCEIRKRLRKYFKFAFVRDPFERFVSAYRNKCVGANYGSD---------MRCKGRK 111
Query: 185 RPTNHSLNHGDDVTFNEFATFLTKNG-RGEEMNEHWRPVHHLCQPCKINYDFIGKEIPNY 243
+ G V+F EF L + HW P LC PC I YD +G
Sbjct: 112 PTDD-----GSGVSFEEFVECLLNLAPERTYFDRHWAPQCDLCHPCLIKYDLVG------ 160
Query: 244 PRKHETLYEDANLLLREIGVPQKFNQNFS 272
K+ETL EDA+ +LR +G ++
Sbjct: 161 --KYETLEEDASAILRLLGRLRRQGVPLF 187
>gnl|CDD|143560 cd07451, CRD_SMO, Cysteine-rich domain of the smoothened receptor
(Smo) integral membrane protein. The cysteine-rich
domain (CRD) is part of the smoothened receptor (Smo),
an integral membrane protein and one of the key players
in the Hedgehog (Hh) signaling pathway, critical for
development, cell growth and migration, as well as stem
cell maintenance. The CRD of Smo is conserved in
vertebrates and can also be identified in invertebrates.
The precise function of the CRD in Smo is unknown.
Mutations in the Drosophila CRD disrupt Smo activity in
vivo, while deletion of the CRD in mammalian cells does
not seem to affect the activity of overexpressed Smo.
Length = 132
Score = 110 bits (277), Expect = 1e-28
Identities = 41/78 (52%), Positives = 51/78 (65%), Gaps = 3/78 (3%)
Query: 491 ERLKRWQGLKYIPKCWAVIQSFLCALYMPKCEDNVVSVPSQEVCKLLSGPCRIVAQELS- 549
E+L W GL+ +PKCWAVIQ LCALYMPKCE+ V +PSQE+C+ GPC+IV E
Sbjct: 39 EKLHLWSGLRNVPKCWAVIQPLLCALYMPKCENGKVELPSQEMCQATRGPCKIVENERGW 98
Query: 550 PEF-NCQNGTKISSHSCK 566
P+F C N + CK
Sbjct: 99 PDFLRCDN-DRFPPRGCK 115
>gnl|CDD|214498 smart00063, FRI, Frizzled. Drosophila melanogaster frizzled
mediates signalling that polarises a precursor cell
along the anteroposterior axis. Homologues of the
N-terminal region of frizzled exist either as
transmembrane or secreted molecules. Frizzled homologues
are reported to be receptors for the Wnt growth factors.
(Not yet in MEDLINE: the FRI domain occurs in several
receptor tyrosine kinases [Xu, Y.K. and Nusse, Curr.
Biol. 8 R405-R406 (1998); Masiakowski, P. and
Yanopoulos, G.D., Curr. Biol. 8, R407 (1998)].
Length = 113
Score = 52.7 bits (127), Expect = 1e-08
Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 6/64 (9%)
Query: 496 WQGLKYIPKCWAVIQSFLCALYMPKCE-DNVVSVPSQEVCKLLSGPCRIVAQELS---PE 551
+ L + C ++ FLC++Y P C D +P + +C+ C + ++ PE
Sbjct: 38 FHPLLNVQ-CSPDLRFFLCSVYAPICTEDLRPILPCRSLCEAAREGCEPLMEKFGFPWPE 96
Query: 552 F-NC 554
F C
Sbjct: 97 FLRC 100
>gnl|CDD|201766 pfam01392, Fz, Fz domain. Also known as the CRD (cysteine rich
domain), the C6 box in MuSK receptor. This domain of
unknown function has been independently identified by
several groups. The domain contains 10 conserved
cysteines.
Length = 108
Score = 50.8 bits (122), Expect = 5e-08
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 7/66 (10%)
Query: 496 WQGLKYIPKCWAVIQSFLCALYMPKCEDNVVSV--PSQEVCKLLSGPCRIVAQELS---P 550
W L + KC +Q FLC+LY P C + + + P + +C+ + C V + P
Sbjct: 38 WTPLVNV-KCSPALQFFLCSLYAPVCTEGLRTPIPPCRSLCEAVKEGCEPVMETFGFGWP 96
Query: 551 EF-NCQ 555
E C
Sbjct: 97 ELLECS 102
>gnl|CDD|143549 cd07066, CRD_FZ, CRD_domain cysteine-rich domain, also known as Fz
(frizzled) domain. CRD_FZ is an essential component of
a number of cell surface receptors, which are involved
in multiple signal transduction pathways, particularly
in modulating the activity of the Wnt proteins, which
play a fundamental role in the early development of
metazoans. CRD is also found in secreted frizzled
related proteins (SFRPs), which lack the transmembrane
segment found in the frizzled protein. The CRD domain is
also present in the alpha-1 chain of mouse type XVIII
collagen, in carboxypeptidase Z, several receptor
tyrosine kinases, and the mosaic transmembrane serine
protease corin. The CRD domain is well conserved in
metazoans - 10 frizzled proteins have been identified in
mammals, 4 in Drosophila and 3 in Caenorhabditis
elegans. CRD domains have also been identified in
multiple tandem copies in a Dictyostelium discoideum
protein. Very little is known about the mechanism by
which CRD domains interact with their ligands. The
domain contains 10 conserved cysteines.
Length = 119
Score = 42.5 bits (100), Expect = 6e-05
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 6/57 (10%)
Query: 504 KCWAVIQSFLCALYMPKCEDNVVSV--PSQEVCKLLSGPCRIVAQELS---PE-FNC 554
C ++ FLC+LY P+C + P + +C+ + C + PE +C
Sbjct: 46 GCHPDLRFFLCSLYFPECTPDGDRPIPPCRSLCEEVRDSCEPLMLAFGFPWPEPLDC 102
>gnl|CDD|143558 cd07449, CRD_FZ3, Cysteine-rich Wnt-binding domain (CRD) of the
frizzled 3 (Fz3) receptor. The cysteine-rich domain
(CRD) is an essential extracellular portion of the
frizzled 3 (Fz3) receptor, and is required for binding
Wnt proteins, which play fundamental roles in many
aspects of early development, such as cell and tissue
polarity, neural synapse formation, and the regulation
of proliferation. Fz proteins serve as Wnt receptors for
multiple signal transduction pathways, including both
beta-catenin dependent and -independent cellular
signaling, as well as the planar cell polarity pathway
and Ca(2+) modulating signaling pathway. CRD containing
Fzs have been found in diverse species from amoebas to
mammals. 10 different frizzled proteins are found in
vertebrata. Fz3 plays a vital role in the
anterior-posterior guidance of commissural axons.
Knockout mice without Fz3 show defects in fiber tracts
in the rostral CNS.
Length = 127
Score = 31.1 bits (70), Expect = 0.64
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 504 KCWAVIQSFLCALYMPKC-EDNVVSVPSQEVCKLLSGPC 541
+C + FLCALY P C E V++P + +C+ C
Sbjct: 49 ECSRDFRPFLCALYAPVCMEYGRVTLPCRRLCQRAYSEC 87
>gnl|CDD|143552 cd07443, CRD_SFRP1, Cysteine-rich domain of the secreted
frizzled-related protein 1 (SFRP1), a regulator of Wnt
activity. The cysteine-rich domain (CRD) is an
essential part of the secreted frizzled-related protein
1 (SFRP1), which regulates the activity of Wnt proteins,
key players in a number of fundamental cellular
processes such as embryogenesis and postnatal
development. SFRPs antagonize the activation of Wnt
signaling by binding to the CRDs domains of frizzled
(Fz) proteins, thereby preventing Wnt proteins from
binding to these receptors. SFRPs are also known to have
functions unrelated to Wnt, as enhancers of procollagen
cleavage by the TLD proteinases. SFRPs and Fz proteins
both contain CRD domains, but SFRPs lack the seven-pass
transmembrane domain which is an integral part of Fzs.
SFRP1 is expressed in many tissues and is involved in
the regulation of Wnt signaling in osteoblasts, leading
to enhanced trabecular bone formation in adults; it has
also been shown to control the growth of retinal
ganglion cell axons and the elongation of the
antero-posterior axis.
Length = 124
Score = 30.3 bits (68), Expect = 0.93
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 5/56 (8%)
Query: 495 RWQGLKYIP----KCWAVIQSFLCALYMPKCEDNVVSVPSQEVCKLLSGPCRIVAQ 546
+ Q ++P C Q FLC+L+ P C D V P + +C+ + C V Q
Sbjct: 40 KQQASSWVPLLNKNCHKGTQVFLCSLFAPVCLDRPV-YPCRWLCEAVRDSCEPVMQ 94
>gnl|CDD|240854 cd12408, RRM_eIF3G_like, RNA recognition motif in eukaryotic
translation initiation factor 3 subunit G (eIF-3G) and
similar proteins. This subfamily corresponds to the RRM
of eIF-3G and similar proteins. eIF-3G, also termed
eIF-3 subunit 4, or eIF-3-delta, or eIF3-p42, or
eIF3-p44, is the RNA-binding subunit of eIF3, a large
multisubunit complex that plays a central role in the
initiation of translation by binding to the 40 S
ribosomal subunit and promoting the binding of
methionyl-tRNAi and mRNA. eIF-3G binds 18 S rRNA and
beta-globin mRNA, and therefore appears to be a
nonspecific RNA-binding protein. eIF-3G is one of the
cytosolic targets and interacts with mature
apoptosis-inducing factor (AIF). eIF-3G contains one RNA
recognition motif (RRM), also termed RBD (RNA binding
domain) or RNP (ribonucleoprotein domain). This family
also includes yeast eIF3-p33, a homolog of vertebrate
eIF-3G, plays an important role in the initiation phase
of protein synthesis in yeast. It binds both, mRNA and
rRNA, fragments due to an RRM near its C-terminus. .
Length = 77
Score = 29.4 bits (67), Expect = 1.00
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 13/50 (26%)
Query: 308 IRITNLPKDLPEFLNESKSAVEDAVLEALDNKYNKSDISSVFLSKDREAG 357
IR+TNL +D ++ L L + IS V+L+KD+E G
Sbjct: 2 IRVTNLSED-----------ADEDDLRELFRPFGP--ISRVYLAKDKETG 38
>gnl|CDD|237054 PRK12316, PRK12316, peptide synthase; Provisional.
Length = 5163
Score = 32.2 bits (73), Expect = 1.0
Identities = 14/24 (58%), Positives = 16/24 (66%), Gaps = 2/24 (8%)
Query: 148 PFERLVSAFHNKLEQSYSSSKYFQ 171
PFERLV A K+E+S S S FQ
Sbjct: 375 PFERLVEAL--KVERSLSHSPLFQ 396
>gnl|CDD|143557 cd07448, CRD_FZ4, Cysteine-rich Wnt-binding domain of the frizzled
4 (Fz4) receptor. The cysteine-rich domain (CRD) is an
essential extracellular portion of the frizzled 4 (Fz4)
receptor, and is required for binding Wnt proteins,
which play fundamental roles in many aspects of early
development, such as cell and tissue polarity, neural
synapse formation, and the regulation of proliferation.
Fz proteins serve as Wnt receptors for multiple signal
transduction pathways, including both beta-catenin
dependent and -independent cellular signaling, as well
as the planar cell polarity pathway and the Ca(2+)
modulating signaling pathway. CRD containing Fzs have
been found in diverse species from amoebas to mammals.
10 different frizzled proteins are found in vertebrata.
Frizzled 4 (Fz4) activates the
Ca(2+)/calmodulin-dependent protein kinase II and
protein kinase C of the Wnt/Ca(2+) signaling pathway
during retinal angiogenesis. Mutations in Fz4 lead to
familial exudative vitreoretinopathy (FEVR), a
hereditary ocular disorder characterized by failure of
the peripheral retinal vascularization. In addition, the
interplay between Fz4 and norrin as a receptor-ligand
pair plays an important role in vascular development in
the retina and inner ear in a Wnt-independent manner.
Length = 126
Score = 30.1 bits (68), Expect = 1.1
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 6/58 (10%)
Query: 505 CWAVIQSFLCALYMPKCED--NVVSVPSQEVCKLLSGPCRIVAQELS----PEFNCQN 556
C + ++ FLC++Y+P C + V P + +C + C V +E NC
Sbjct: 49 CSSQLKFFLCSVYVPMCTEKVPVPIGPCRPLCLSVKKRCLPVLKEFGFPWPEALNCSK 106
>gnl|CDD|143572 cd07463, CRD_FZ9, Cysteine-rich Wnt-binding domain (CRD) of the
frizzled 9 (Fz9) receptor. The cysteine-rich domain
(CRD) is an essential extracellular portion of the
frizzled 9 (Fz9) receptor, and is required for binding
Wnt proteins, which play fundamental roles in many
aspects of early development, such as cell and tissue
polarity, neural synapse formation, and the regulation
of proliferation. Fz proteins serve as Wnt receptors for
multiple signal transduction pathways, including both
beta-catenin dependent and -independent cellular
signaling, as well as the planar cell polarity pathway
and Ca(2+) modulating signaling pathway. CRD containing
Fzs have been found in diverse species from amoebas to
mammals. 10 different frizzled proteins are found in
vertebrata. Fz9 may play a signaling role in lymphoid
development and maturation, particularly at points where
B cells undergo self-renewal prior to further
differentiation.
Length = 127
Score = 30.4 bits (68), Expect = 1.2
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 505 CWAVIQSFLCALYMPKCEDNV-VSVPSQEVCKLLSGPCRIVAQELSPEFN 553
C ++ FLC+LY P C D V S+P+ C+ + R + +FN
Sbjct: 50 CHVHLRFFLCSLYAPMCTDQVSTSIPA---CRPMCEQARQKCSPIMEQFN 96
>gnl|CDD|214767 smart00663, RPOLA_N, RNA polymerase I subunit A N-terminus.
Length = 295
Score = 31.3 bits (72), Expect = 1.2
Identities = 16/69 (23%), Positives = 32/69 (46%), Gaps = 2/69 (2%)
Query: 253 DANLLLREIGVPQKFNQNFSFKVKNTEVSFERIKECGPRG--GAEAQNRGDRQFNMEIRI 310
D NL L E+GVP++ +F T ++ +++++ G GA+ RG + +
Sbjct: 123 DPNLKLNEVGVPKEIALELTFPEIVTPLNIDKLRKLVRNGPNGAKYIIRGKKTNLKLAKK 182
Query: 311 TNLPKDLPE 319
+ + L
Sbjct: 183 SKIANHLKI 191
>gnl|CDD|143551 cd07442, CRD_SFRP4, Cysteine-rich domain of the secreted
frizzled-related protein 4 (SFRP4), a Wnt antagonist.
The cysteine-rich domain (CRD) is an essential part of
the secreted frizzled-related Protein 4 (SFRP4), which
regulates the activity of Wnt proteins, key players in a
number of fundamental cellular processes such as
embryogenesis and postnatal development. SFRPs
antagonize the activation of Wnt signaling by binding to
the CRDs domains of frizzled (Fz) proteins, thereby
preventing Wnt proteins from binding to these receptors.
SFRPs are also known to have functions unrelated to Wnt,
as enhancers of procollagen cleavage by the TLD
proteinases. SFRPs and Fz proteins both contain CRD
domains, but SFRPs lack the seven-pass transmembrane
domain which is an integral part of Fzs.
Length = 127
Score = 30.0 bits (67), Expect = 1.5
Identities = 18/60 (30%), Positives = 25/60 (41%), Gaps = 10/60 (16%)
Query: 505 CWAVIQSFLCALYMPKCEDNVVSVPSQEVCKLLSGPCRIVAQELSPEFNCQNGTKISSHS 564
C V+ FLCA+Y P C + P + PCR V Q C+ + +HS
Sbjct: 50 CSPVLPFFLCAMYAPICTLEFLYDPIK--------PCRSVCQRARD--GCEPIMRRYNHS 99
>gnl|CDD|143553 cd07444, CRD_SFRP5, Cysteine-rich domain of the secreted
frizzled-related protein 5 (SFRP5), a regulator of Wnt
activity. The cysteine-rich domain (CRD) is an
essential part of the secreted frizzled-related Protein
5 (SFRP5), which regulates the activity of Wnt proteins,
key players in a number of fundamental cellular
processes such as embryogenesis and postnatal
development. SFRPs antagonize the activation of Wnt
signaling by binding to the CRD domains of frizzled (Fz)
proteins, thereby preventing Wnt proteins from binding
to these receptors. SFRPs are also known to have
functions unrelated to Wnt, as enhancers of procollagen
cleavage by the TLD proteinases. SFRPs and Fz proteins
both contain CRD domains, but SFRPs lack the seven-pass
transmembrane domain which is an integral part of Fzs.
Length = 127
Score = 29.5 bits (66), Expect = 1.7
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 504 KCWAVIQSFLCALYMPKCEDNVVSVPSQEVCKLLSGPC 541
+C A Q FLC+L+ P C D + P + +C+ + C
Sbjct: 53 RCHADTQVFLCSLFAPVCLDRPI-YPCRSLCEAVRDSC 89
>gnl|CDD|143571 cd07462, CRD_FZ10, Cysteine-rich Wnt-binding domain (CRD) of the
frizzled 10 (Fz10) receptor. The cysteine-rich domain
(CRD) is an essential extracellular portion of the
frizzled 10 (Fz10) receptor, and is required for binding
Wnt proteins, which play fundamental roles in many
aspects of early development, such as cell and tissue
polarity, neural synapse formation, and the regulation
of proliferation. Fz proteins serve as Wnt receptors for
multiple signal transduction pathways, including both
beta-catenin dependent and -independent cellular
signaling, as well as the planar cell polarity pathway
and Ca(2+) modulating signaling pathway. CRD containing
Fzs have been found in diverse species from amoebas to
mammals. 10 different frizzled proteins are found in
vertebrata. The cellular functon of Fz10 is unknown.
Length = 127
Score = 29.6 bits (66), Expect = 2.1
Identities = 14/50 (28%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 505 CWAVIQSFLCALYMPKCEDNVVS-VPSQEVCKLLSGPCRIVAQELSPEFN 553
C + ++ FLC+LY P C + V + +P+ C+++ R+ + +FN
Sbjct: 50 CHSHLKFFLCSLYAPMCTEQVSTPIPA---CRVMCEQARLKCSPIMEQFN 96
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 30.2 bits (69), Expect = 3.3
Identities = 23/83 (27%), Positives = 35/83 (42%), Gaps = 15/83 (18%)
Query: 405 PIIVTKDFYTAKKLILEI---GEHMIAGQT---PTLARVVEAEVSRNATVEVSEVVEEVV 458
P+I +DF T +L EI GE QT P ++ V R A E+ ++ +
Sbjct: 416 PVIEVRDFET-GELEYEIYTFGE-----QTVVVPVEEEEEKSPVWRLAEKEIEREIKRYL 469
Query: 459 FVEAEALEVEIAVEVEIAVEVLE 481
EVE+ + + V V E
Sbjct: 470 PGPV---EVEVVSDNKAVVYVPE 489
>gnl|CDD|235340 PRK05086, PRK05086, malate dehydrogenase; Provisional.
Length = 312
Score = 30.0 bits (68), Expect = 3.4
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 383 SGIKALIGASNVVEFSYVDG 402
S ++AL G VVE +YV+G
Sbjct: 237 SLVRALQGEQGVVECAYVEG 256
>gnl|CDD|143559 cd07450, CRD_FZ6, Cysteine-rich Wnt-binding domain (CRD) of the
frizzled 6 (Fz6) receptor. The cysteine-rich domain
(CRD) is an essential extracellular portion of the
frizzled 6 (Fz6) receptor, and is required for binding
Wnt proteins, which play fundamental roles in many
aspects of early development, such as cell and tissue
polarity, neural synapse formation, and the regulation
of proliferation. Fz proteins serve as Wnt receptors for
multiple signal transduction pathways, including both
beta-catenin dependent and -independent cellular
signaling, as well as the planar cell polarity pathway
and Ca(2+) modulating signaling pathway. CRD containing
Fzs have been found in diverse species from amoebas to
mammals. 10 different frizzled proteins are found in
vertebrata. Frizzled 6 (Fz6) is expressed in the skin
and hair follicles and controls hair patterning in
mammals using a Fz-dependent tissue polarity system,
which is similar to the one that patterns the Drosophila
cuticle.
Length = 127
Score = 29.0 bits (65), Expect = 3.5
Identities = 11/40 (27%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 504 KCWAVIQSFLCALYMPKCEDNVVSV-PSQEVCKLLSGPCR 542
+C + +FLC ++P C + + V P +E+C+ + C+
Sbjct: 49 RCSPNVHTFLCQAFVPTCTEQIHVVRPCRELCEKVYSDCK 88
>gnl|CDD|143566 cd07457, CRD_FZ9_like, Cysteine-rich Wnt-binding domain (CRD) of
receptors similar to frizzled 9. The cysteine-rich
domain (CRD) is an essential extracellular portion of
the frizzled 9 (Fz9) and frizzled 10 (Fz10) receptors,
and similar proteins. This domain is required for
binding Wnt proteins, which play fundamental roles in
many aspects of early development, such as cell and
tissue polarity, neural synapse formation, and the
regulation of proliferation. Fz proteins serve as Wnt
receptors for multiple signal transduction pathways,
including both beta-catenin dependent and -independent
cellular signaling, as well as the planar cell polarity
pathway and Ca(2+) modulating signaling pathway. The CRD
domain is well conserved in metazoans - 10 frizzled
proteins have been identified in mammals, 4 in
Drosophila and 3 in Caenorhabditis elegans. Very little
is known about the mechanism by which CRD domains
interact with their ligands. The domain contains 10
conserved cysteines.
Length = 121
Score = 28.6 bits (64), Expect = 4.0
Identities = 15/56 (26%), Positives = 30/56 (53%), Gaps = 6/56 (10%)
Query: 505 CWAVIQSFLCALYMPKCEDNV-VSVPS-QEVCKLLSGPCRIVAQELS---PE-FNC 554
C ++ FLC+LY P C + V + +P+ + +C+ C + ++ S P+ +C
Sbjct: 48 CAEHLRFFLCSLYAPMCTEQVSIPIPACRSMCEQARDKCSPIMEQFSFSWPDSLDC 103
>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed.
Length = 1068
Score = 29.6 bits (67), Expect = 5.1
Identities = 11/49 (22%), Positives = 14/49 (28%), Gaps = 1/49 (2%)
Query: 438 VEAEVSRNATVEVSEVVEEVVFVEAEALEVEIAVEVEIAVEVLEVAEGV 486
V A +E + EVV E E + A V V
Sbjct: 949 VVEPQDETADIEEAAETAEVVVAEPEV-VAQPAAPVVAEVAAEVETVTA 996
Score = 29.2 bits (66), Expect = 8.0
Identities = 18/68 (26%), Positives = 24/68 (35%), Gaps = 5/68 (7%)
Query: 426 MIAGQTPTLARVVEAEVSRNATVEVSEVVEEVV---FVEAEAL--EVEIAVEVEIAVEVL 480
+ A VV AE V V EV+ E + E ++AV E+A
Sbjct: 888 VEAVAEVVEEPVVVAEPQPEEVVVVETTHPEVIAAPVTEQPQVITESDVAVAQEVAEHAE 947
Query: 481 EVAEGVDV 488
V E D
Sbjct: 948 PVVEPQDE 955
Score = 29.2 bits (66), Expect = 8.1
Identities = 10/48 (20%), Positives = 15/48 (31%)
Query: 437 VVEAEVSRNATVEVSEVVEEVVFVEAEALEVEIAVEVEIAVEVLEVAE 484
V EV+ +A V E EA + E E+ +
Sbjct: 937 AVAQEVAEHAEPVVEPQDETADIEEAAETAEVVVAEPEVVAQPAAPVV 984
>gnl|CDD|215206 PLN02362, PLN02362, hexokinase.
Length = 509
Score = 29.1 bits (65), Expect = 7.6
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 6/61 (9%)
Query: 221 PVHHLCQPCKINYDFIGKEIPNYPRKHETLYEDANLLLREIGVPQKFNQNFSFKVKNTEV 280
P H + ++ +DFI + + K E E + + RE+G FSF VK T +
Sbjct: 132 PQHLMNSTSEVLFDFIASSLKQFVEKEENGSEFSQVRRRELGF------TFSFPVKQTSI 185
Query: 281 S 281
S
Sbjct: 186 S 186
>gnl|CDD|220605 pfam10156, Med17, Subunit 17 of Mediator complex. This Mediator
complex subunit was formerly known as Srb4 in yeasts or
Trap80 in Drosophila and human. The Med17 subunit is
located within the head domain and is essential for cell
viability to the extent that a mutant strain of
cerevisiae lacking it shows all RNA polymerase
II-dependent transcription ceasing at non-permissive
temperatures.
Length = 454
Score = 28.9 bits (65), Expect = 8.5
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 319 EFLNESKSAVEDAVLEALDNKYNKSDISSVFLSKDREAGAIAVTSEPFYKDLLKLG 374
E +++ V + + +AL+ D S+ LSK + A S P K L+ G
Sbjct: 93 EEFPKARDEVLEQLNQALNESSLALDFVSLLLSKVKPRQAKTSLS-PHLKQLVPPG 147
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
0.317 0.134 0.391
Gapped
Lambda K H
0.267 0.0824 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 28,619,175
Number of extensions: 2838888
Number of successful extensions: 2534
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2527
Number of HSP's successfully gapped: 36
Length of query: 568
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 466
Effective length of database: 6,413,494
Effective search space: 2988688204
Effective search space used: 2988688204
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: 62 (27.5 bits)