RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5819
(296 letters)
>gnl|CDD|107226 cd06469, p23_DYX1C1_like, p23_like domain found in proteins
similar to dyslexia susceptibility 1 (DYX1) candidate 1
(C1) protein, DYX1C1. The human gene encoding this
protein is a positional candidate gene for
developmental dyslexia (DD), it is located on 15q21.3
by the DYX1 DD susceptibility locus (15q15-21).
Independent association studies have reported
conflicting results. However, association of short-term
memory, which plays a role in DD, with a variant within
the DYX1C1 gene has been reported. Most proteins
belonging to this group contain a C-terminal
tetratricopeptide repeat (TPR) protein binding region.
Length = 78
Score = 80.4 bits (199), Expect = 2e-19
Identities = 31/76 (40%), Positives = 45/76 (59%)
Query: 10 WRQTPSKVFITVPLYNVPTHKVDVFTSESYIKLHYGNYIFEKLLLRPIVEEASRIRLENN 69
W QT V I+VPL V T KVD+F S+ Y+K+++ Y+FE L PI +E S ++ N
Sbjct: 1 WSQTDEDVKISVPLKGVKTSKVDIFCSDLYLKVNFPPYLFELDLAAPIDDEKSSAKIGNG 60
Query: 70 EAEFELIKSEQAMWDE 85
F L+K E +W+
Sbjct: 61 VLVFTLVKKEPGIWEA 76
>gnl|CDD|107220 cd06463, p23_like, Proteins containing this p23_like domain
include p23 and its Saccharomyces cerevisiae (Sc)
homolog Sba1. Both are co-chaperones for the heat shock
protein (Hsp) 90. p23 binds Hsp90 and participates in
the folding of a number of Hsp90 clients, including the
progesterone receptor. p23 also has a passive
chaperoning activity and in addition may participate in
prostaglandin synthesis. Both p23 and Sba1p can
regulate telomerase activity. This group includes
domains similar to the C-terminal CHORD-SGT1 (CS)
domain of suppressor of G2 allele of Skp1 (Sgt1). Sgt1
interacts with multiple protein complexes and has the
features of a co-chaperone. Human (h) Sgt1 interacts
with both Hsp70 and Hsp90, and has been shown to bind
Hsp90 through its CS domain. Saccharomyces cerevisiae
(Sc) Sgt1 is a subunit of both core kinetochore and SCF
(Skp1-Cul1-F-box) ubiquitin ligase complexes. Sgt1 is
required for pathogen resistance in plants. This group
also includes the p23_like domains of human
butyrate-induced transcript 1 (hB-ind1), NUD (nuclear
distribution) C, Melusin, and NAD(P)H cytochrome b5
(NCB5) oxidoreductase (OR). hB-ind1 plays a role in the
signaling pathway mediated by the small GTPase Rac1,
NUDC is needed for nuclear movement, Melusin interacts
with two splice variants of beta1 integrin, and NCB5OR
plays a part in maintaining viable pancreatic beta
cells.
Length = 84
Score = 54.2 bits (131), Expect = 8e-10
Identities = 24/79 (30%), Positives = 35/79 (44%), Gaps = 5/79 (6%)
Query: 10 WRQTPSKVFITVPLYNVPTHKVDVFTSESYIKLHY-----GNYIFEKLLLRPIVEEASRI 64
W QT +V IT+PL +V V V + + + Y+ E L PI E S+
Sbjct: 1 WYQTLDEVTITIPLKDVTKKDVKVEFTPKSLTVSVKGGGGKEYLLEGELFGPIDPEESKW 60
Query: 65 RLENNEAEFELIKSEQAMW 83
+E+ + E L K E W
Sbjct: 61 TVEDRKIEITLKKKEPGEW 79
>gnl|CDD|218355 pfam04969, CS, CS domain. The CS and CHORD (pfam04968) are fused
into a single polypeptide chain in metazoans but are
found in separate proteins in plants; this is thought
to be indicative of an interaction between CS and
CHORD. It has been suggested that the CS domain is a
binding module for HSP90, implying that CS
domain-containing proteins are involved in recruiting
heat shock proteins to multiprotein assemblies.
Length = 78
Score = 47.6 bits (114), Expect = 2e-07
Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 6/75 (8%)
Query: 9 CWRQTPSKVFITVPLYNVPTHK-VDVFTSESYIKLHY-----GNYIFEKLLLRPIVEEAS 62
W QT +V IT+PL V K V V +K+ Y+ + L PI E S
Sbjct: 4 DWYQTLDEVTITIPLKGVTKKKDVKVEIKPRSLKVSIKGPGGKEYLLDGELFGPIDPEES 63
Query: 63 RIRLENNEAEFELIK 77
++E+ + E L K
Sbjct: 64 SWKIEDTKVEITLKK 78
>gnl|CDD|222112 pfam13414, TPR_11, TPR repeat.
Length = 69
Score = 46.2 bits (110), Expect = 4e-07
Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 233 NNPDWVKAKGDQMFRDGNYLGAVSAYSHGLQLCPNLACLYSNRAAAHLALNNLHK-AVDD 291
+N + +K G+ +F+ G+Y A+ AY L+L P+ A Y N A A+L L ++ A++D
Sbjct: 1 DNAEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALED 60
Query: 292 AS 293
Sbjct: 61 LE 62
>gnl|CDD|215568 PLN03088, PLN03088, SGT1, suppressor of G2 allele of SKP1;
Provisional.
Length = 356
Score = 41.7 bits (98), Expect = 3e-04
Identities = 21/54 (38%), Positives = 32/54 (59%)
Query: 240 AKGDQMFRDGNYLGAVSAYSHGLQLCPNLACLYSNRAAAHLALNNLHKAVDDAS 293
K + F D ++ AV Y+ + L PN A LY++RA A++ L N +AV DA+
Sbjct: 7 DKAKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADAN 60
>gnl|CDD|238112 cd00189, TPR, Tetratricopeptide repeat domain; typically contains
34 amino acids
[WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-
X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found
in a variety of organisms including bacteria,
cyanobacteria, yeast, fungi, plants, and humans in
various subcellular locations; involved in a variety of
functions including protein-protein interactions, but
common features in the interaction partners have not
been defined; involved in chaperone, cell-cycle,
transciption, and protein transport complexes; the
number of TPR motifs varies among proteins (1,3-11,13
15,16,19); 5-6 tandem repeats generate a right-handed
helical structure with an amphipathic channel that is
thought to accomodate an alpha-helix of a target
protein; it has been proposed that TPR proteins
preferably interact with WD-40 repeat proteins, but in
many instances several TPR-proteins seem to aggregate to
multi-protein complexes; examples of TPR-proteins
include, Cdc16p, Cdc23p and Cdc27p components of the
cyclosome/APC, the Pex5p/Pas10p receptor for peroxisomal
targeting signals, the Tom70p co-receptor for
mitochondrial targeting signals, Ser/Thr phosphatase 5C
and the p110 subunit of O-GlcNAc transferase; three
copies of the repeat are present here.
Length = 100
Score = 37.4 bits (87), Expect = 0.001
Identities = 17/57 (29%), Positives = 29/57 (50%)
Query: 239 KAKGDQMFRDGNYLGAVSAYSHGLQLCPNLACLYSNRAAAHLALNNLHKAVDDASEV 295
G+ ++ G+Y A+ Y L+L P+ A Y N AAA+ L +A++D +
Sbjct: 4 LNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKA 60
Score = 33.5 bits (77), Expect = 0.026
Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 2/71 (2%)
Query: 225 AADLRPEENNPDWVKAKGDQMFRDGNYLGAVSAYSHGLQLCPNLACLYSNRAAAHLALNN 284
A +L P +N D ++ G Y A+ Y L+L P+ A Y N A+ L
Sbjct: 26 ALELDP--DNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGK 83
Query: 285 LHKAVDDASEV 295
+A++ +
Sbjct: 84 YEEALEAYEKA 94
>gnl|CDD|107223 cd06466, p23_CS_SGT1_like, p23_like domain similar to the
C-terminal CHORD-SGT1 (CS) domain of Sgt1 (suppressor
of G2 allele of Skp1). Sgt1 interacts with multiple
protein complexes and has the features of a
cochaperone. Human (h) Sgt1 interacts with both Hsp70
and Hsp90, and has been shown to bind Hsp90 through its
CS domain. Saccharomyces cerevisiae (Sc) Sgt1 is a
subunit of both core kinetochore and SCF
(Skp1-Cul1-F-box) ubiquitin ligase complexes. Sgt1 is
required for pathogen resistance in plants. ScSgt1 is
needed for the G1/S and G2/M cell-cycle transitions,
and for assembly of the core kinetochore complex (CBF3)
via activation of Ctf13, the F-box protein. Binding of
Hsp82 (a yeast Hsp90 homologue) to ScSgt1, promotes the
binding of Sgt1 to Skp1 and of Skp1 to Ctf13. Some
proteins in this group have an SGT1-specific (SGS)
domain at the extreme C-terminus. The ScSgt1-SGS domain
binds adenylate cyclase. The hSgt1-SGS domain
interacts with some S100 family proteins, and studies
suggest that the interaction of hSgt1 with Hsp90 and
Hsp70 may be regulated by S100A6 in a Ca2+ dependent
fashion. This group also includes the p23_like domains
of Melusin and NAD(P)H cytochrome b5 (NCB5)
oxidoreductase (OR). Melusin is a vertebrate protein
which interacts with two splice variants of beta1
integrin, and NCB5OR plays a part in maintaining viable
pancreatic beta cells.
Length = 84
Score = 36.8 bits (86), Expect = 0.001
Identities = 23/79 (29%), Positives = 34/79 (43%), Gaps = 5/79 (6%)
Query: 10 WRQTPSKVFITVPLYNVPTHKVDV-FTSES-YIKLHYGN---YIFEKLLLRPIVEEASRI 64
W QT + V +T+ NV V V F +S + + Y E L PI E S++
Sbjct: 2 WYQTDTSVTVTIYAKNVDKEDVKVEFNEQSLSVSIILPGGSEYQLELDLFGPIDPEQSKV 61
Query: 65 RLENNEAEFELIKSEQAMW 83
+ + E L K+E W
Sbjct: 62 SVLPTKVEITLKKAEPGSW 80
>gnl|CDD|233223 TIGR00990, 3a0801s09, mitochondrial precursor proteins import
receptor (72 kDa mitochondrial outermembrane protein)
(mitochondrial import receptor for the ADP/ATP carrier)
(translocase of outermembrane tom70). [Transport and
binding proteins, Amino acids, peptides and amines].
Length = 615
Score = 38.4 bits (89), Expect = 0.003
Identities = 20/56 (35%), Positives = 34/56 (60%), Gaps = 1/56 (1%)
Query: 238 VKAKGDQMFRDGNYLGAVSAYSHGLQLCPNLACLYSNRAAAHLALNNLHKAVDDAS 293
+K KG++ +R+ ++ A+ YS ++ P+ YSNRAA H AL + K V+D +
Sbjct: 130 LKEKGNKAYRNKDFNKAIKLYSKAIECKPD-PVYYSNRAACHNALGDWEKVVEDTT 184
>gnl|CDD|107219 cd00298, ACD_sHsps_p23-like, This domain family includes the
alpha-crystallin domain (ACD) of alpha-crystallin-type
small heat shock proteins (sHsps) and a similar domain
found in p23-like proteins. sHsps are small stress
induced proteins with monomeric masses between 12 -43
kDa, whose common feature is this ACD. sHsps are
generally active as large oligomers consisting of
multiple subunits, and are believed to be
ATP-independent chaperones that prevent aggregation and
are important in refolding in combination with other
Hsps. p23 is a cochaperone of the Hsp90 chaperoning
pathway. It binds Hsp90 and participates in the folding
of a number of Hsp90 clients including the progesterone
receptor. p23 also has a passive chaperoning activity.
p23 in addition may act as the cytosolic prostaglandin
E2 synthase. Included in this family is the p23-like
C-terminal CHORD-SGT1 (CS) domain of suppressor of G2
allele of Skp1 (Sgt1) and the p23-like domains of
human butyrate-induced transcript 1 (hB-ind1), NUD
(nuclear distribution) C, Melusin, and NAD(P)H
cytochrome b5 (NCB5) oxidoreductase (OR).
Length = 80
Score = 35.3 bits (82), Expect = 0.004
Identities = 20/80 (25%), Positives = 30/80 (37%), Gaps = 12/80 (15%)
Query: 10 WRQTPSKVFITVPLYNVPTHKVDVFTSESYIKLH------------YGNYIFEKLLLRPI 57
W QT +V +TV L V + V ++ + + YG + L +
Sbjct: 1 WYQTDDEVVVTVDLPGVKKEDIKVEVEDNVLTISGKREEEEERERSYGEFERSFELPEDV 60
Query: 58 VEEASRIRLENNEAEFELIK 77
E S+ LEN E L K
Sbjct: 61 DPEKSKASLENGVLEITLPK 80
>gnl|CDD|107239 cd06489, p23_CS_hSgt1_like, p23_like domain similar to the
C-terminal CS (CHORD-SGT1) domain of human (h) Sgt1 and
related proteins. hSgt1 is a co-chaperone which has
been shown to be elevated in HEp-2 cells as a result of
stress conditions such as heat shock. It interacts with
the heat shock proteins (HSPs) Hsp70 and Hsp90, and it
expression pattern is synchronized with these two Hsps.
The interaction with HSP90 has been shown to involve
the hSgt1_CS domain, and appears to be required for
correct kinetochore assembly and efficient cell
division. Some proteins in this subgroup contain a
tetratricopeptide repeat (TPR) HSP-binding domain
N-terminal to this CS domain, and most proteins in this
subgroup contain a Sgt1-specific (SGS) domain
C-terminal to the CS domain. The SGS domain interacts
with some S100 family proteins. Studies suggest that
S100A6 modulates in a Ca2+ dependent manner the
interactions of hSgt1 with Hsp90 and Hsp70. The yeast
Sgt1 CS domain is not found in this subgroup.
Length = 84
Score = 35.0 bits (81), Expect = 0.005
Identities = 29/79 (36%), Positives = 40/79 (50%), Gaps = 5/79 (6%)
Query: 10 WRQTPSKVFITVPLYNVPTHKVDVFTSES----YIKLHYGNYIFEKL-LLRPIVEEASRI 64
W QT S+V IT+ + NV V V + +KL GN KL LL PIV E S
Sbjct: 2 WYQTESQVVITILIKNVKPEDVSVEFEKRELSATVKLPSGNDYSLKLHLLHPIVPEQSSY 61
Query: 65 RLENNEAEFELIKSEQAMW 83
++ + + E +L K+E W
Sbjct: 62 KILSTKIEIKLKKTEAIRW 80
>gnl|CDD|107222 cd06465, p23_hB-ind1_like, p23_like domain found in human (h)
butyrate-induced transcript 1 (B-ind1) and similar
proteins. hB-ind1 participates in signaling by the
small GTPase Rac1. It binds to Rac1 and enhances
different Rac1 effects including activation of nuclear
factor (NF) kappaB and activation of c-Jun N-terminal
kinase (JNK). hB-ind1 also plays a part in the RNA
replication and particle production of Hepatitis C
virus (HCV) through its interaction with heat shock
protein Hsp90, HCV nonstructural protein 5A (NS5A), and
the immunophilin FKBP8. hB-ind1 is upregulated in the
outer layer of Chinese hamster V79 cells grown as
multicell spheroids, versus in the same cells grown as
monolayers. This group includes the Saccharomyces
cerevisiae Sba1, a co-chaperone of the Hsp90. Sba1 has
been shown to be is required for telomere length
maintenance, and may modulate telomerase DNA-binding
activity.
Length = 108
Score = 33.3 bits (77), Expect = 0.031
Identities = 18/78 (23%), Positives = 32/78 (41%), Gaps = 4/78 (5%)
Query: 10 WRQTPSKVFITVPLYNVPTHKVDVFTSESYIKLHYG----NYIFEKLLLRPIVEEASRIR 65
W Q V++T+ L + K+ + + K G Y F+ + I E S+ +
Sbjct: 5 WAQRSDVVYLTIELPDAKDPKIKLEPTSLSFKAKGGGGGKKYEFDLEFYKEIDPEESKYK 64
Query: 66 LENNEAEFELIKSEQAMW 83
+ + EF L K E +
Sbjct: 65 VTGRQIEFVLRKKEAGEY 82
>gnl|CDD|234252 TIGR03545, TIGR03545, TIGR03545 family protein. This model
represents a relatively rare but broadly distributed
uncharacterized protein family, distributed in 1-2
percent of bacterial genomes, all of which have outer
membranes. In many of these genomes, it is part of a
two-gene pair.
Length = 555
Score = 32.4 bits (74), Expect = 0.27
Identities = 24/122 (19%), Positives = 44/122 (36%), Gaps = 14/122 (11%)
Query: 59 EEASRIRLENNEAEFELIKS---EQAMWDEKKDK-RSKEAV-SVQMKLETQEQTDVSNMK 113
L+ E E+ KS Q W ++K +K+ + + +LE ++ D+ N
Sbjct: 153 ALLKGEDLKTVETAEEIEKSLKAMQQKWKKRKKDLPNKQDLEEYKKRLEAIKKKDIKNPL 212
Query: 114 ERQK-WEALSGNYECNGNTRAPCGDEDAPKVSNEKEIQNKHKAMMDKITRRVRAQLKAEE 172
E QK E + G D K+ + K K + ++ + +
Sbjct: 213 ELQKIKEEFD-------KLKKE-GKADKQKIKSAKNDLQNDKKQLKADLAELKKAPQNDL 264
Query: 173 KR 174
KR
Sbjct: 265 KR 266
>gnl|CDD|219250 pfam06983, 3-dmu-9_3-mt, 3-demethylubiquinone-9
3-methyltransferase. This family represents a conserved
region approximately 100 residues long within a number
of bacterial and archaeal 3-demethylubiquinone-9
3-methyltransferases (EC:2.1.1.64). Note that some
family members contain more than one copy of this
region, and that many members are hypothetical proteins.
Length = 116
Score = 29.5 bits (67), Expect = 0.71
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 11/44 (25%)
Query: 93 EAVSVQMKLETQEQTDVSNMKERQKWEALSGNYECNGNTRAPCG 136
EA+S + ETQE+ D + W ALS +G + CG
Sbjct: 71 EAISFFVSCETQEEVD-------RYWNALSA----DGGPESQCG 103
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 30.0 bits (68), Expect = 1.7
Identities = 15/61 (24%), Positives = 27/61 (44%), Gaps = 5/61 (8%)
Query: 64 IRLENNEAEFELIKSEQ--AMWDEKKDKRSKEAVSVQMKLETQEQTDVSNMKERQKWEAL 121
IR+E+ + K + + EK++K + + KL+ QE+ KE +K E
Sbjct: 533 IRIEDKPDGPSVWKLDDKEELQREKEEKEALKEQKRLRKLKKQEEKKK---KELEKLEKA 589
Query: 122 S 122
Sbjct: 590 K 590
>gnl|CDD|107224 cd06467, p23_NUDC_like, p23_like domain of NUD (nuclear
distribution) C and similar proteins. Aspergillus
nidulas (An) NUDC is needed for nuclear movement.
AnNUDC is localized at the hyphal cortex, and binds
NUDF at spindle pole bodies (SPBs) and in the cytoplasm
at different stages in the cell cycle. At the SPBs it
is part of the dynein molecular motor/NUDF complex that
regulates microtubule dynamics. Mammalian(m) NUDC
associates both with the dynein complex and also with
an anti-inflammatory enzyme, platelet activating factor
acetylhydrolase I, PAF-AH(I) complex, through binding
mNUDF, the regulatory beta subunit of PAF-AH(I). mNUDC
is important for cell proliferation both in normal and
tumor tissues. Its expression is elevated in various
cell types undergoing mitosis or stimulated to
proliferate, with high expression levels observed in
leukemic cells and tumors. For a leukemic cell line,
human NUDC was shown to activate the thrombopoietin
(TPO) receptor (Mpl) by binding to its extracellular
domain, and promoting cell proliferation and
differentiation. This group also includes the human
broadly immunogenic tumor associated antigen, CML66,
which is highly expressed in a variety of solid tumors
and in leukemias. In normal tissues high expression of
CML66 is limited to testis and heart.
Length = 85
Score = 27.9 bits (63), Expect = 1.7
Identities = 19/81 (23%), Positives = 33/81 (40%), Gaps = 8/81 (9%)
Query: 9 CWRQTPSKVFITVPLYNVPTHKVDV---FTSESYIKLHYGNY--IFEKLLLRPI-VEEAS 62
W QT +V +T+PL T DV T ++K+ + + L + V+E++
Sbjct: 2 SWTQTLDEVTVTIPL-PEGTKSKDVKVEITP-KHLKVGVKGGEPLLDGELYAKVKVDEST 59
Query: 63 RIRLENNEAEFELIKSEQAMW 83
+ E L K + W
Sbjct: 60 WTLEDGKLLEITLEKRNEGEW 80
>gnl|CDD|216019 pfam00609, DAGK_acc, Diacylglycerol kinase accessory domain.
Diacylglycerol (DAG) is a second messenger that acts as
a protein kinase C activator. This domain is assumed to
be an accessory domain: its function is unknown.
Length = 157
Score = 28.7 bits (65), Expect = 2.0
Identities = 13/42 (30%), Positives = 20/42 (47%)
Query: 34 FTSESYIKLHYGNYIFEKLLLRPIVEEASRIRLENNEAEFEL 75
F S KL YG + F+K+L R ++ LE + + L
Sbjct: 29 FNSRLKNKLIYGKFGFKKMLQRSCKNLIEKVELEVDGKDVPL 70
>gnl|CDD|205609 pfam13431, TPR_17, Tetratricopeptide repeat.
Length = 34
Score = 26.4 bits (59), Expect = 2.1
Identities = 12/33 (36%), Positives = 15/33 (45%)
Query: 257 AYSHGLQLCPNLACLYSNRAAAHLALNNLHKAV 289
Y L+L PN A Y N A L L +A+
Sbjct: 1 LYEKALELDPNNAEAYYNLALLLLNLGQYDEAL 33
>gnl|CDD|234059 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat
lipoprotein. This protein family occurs in strictly
within a subset of Gram-negative bacterial species with
the proposed PEP-CTERM/exosortase system, analogous to
the LPXTG/sortase system common in Gram-positive
bacteria. This protein occurs in a species if and only
if a transmembrane histidine kinase (TIGR02916) and a
DNA-binding response regulator (TIGR02915) also occur.
The present of tetratricopeptide repeats (TPR) suggests
protein-protein interaction, possibly for the regulation
of PEP-CTERM protein expression, since many PEP-CTERM
proteins in these genomes are preceded by a proposed DNA
binding site for the response regulator.
Length = 899
Score = 29.7 bits (67), Expect = 2.2
Identities = 17/66 (25%), Positives = 26/66 (39%), Gaps = 3/66 (4%)
Query: 234 NPDWVKA---KGDQMFRDGNYLGAVSAYSHGLQLCPNLACLYSNRAAAHLALNNLHKAVD 290
+P V A KGD + GN A++AY + L PN + A + +A
Sbjct: 189 DPGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNNIAVLLALATILIEAGEFEEAEK 248
Query: 291 DASEVR 296
A +
Sbjct: 249 HADALL 254
>gnl|CDD|234032 TIGR02855, spore_yabG, sporulation peptidase YabG. Members of this
family are the protein YabG, demonstrated for Bacillus
subtilis to be an endopeptidase able to release
N-terminal peptides from a number of sporulation
proteins, including CotT, CotF, and SpoIVA. It appears
to be expressed under control of sigma-K [Cellular
processes, Sporulation and germination].
Length = 283
Score = 28.9 bits (65), Expect = 2.9
Identities = 18/68 (26%), Positives = 33/68 (48%), Gaps = 5/68 (7%)
Query: 64 IRLENNEAEFELIKSEQAMWDEKKDKRSKEAVSVQMKLETQEQTDVSNMKERQKWEALSG 123
+RL + +L +++ +K+ KR KE + +L Q D MKE++++ A G
Sbjct: 38 MRLIADAPLDDLELVDESER-KKRKKRFKERMETSYRLFRQ---DYKLMKEKKEYRATGG 93
Query: 124 NYECNGNT 131
Y+ N
Sbjct: 94 -YKNNQLY 100
>gnl|CDD|234376 TIGR03863, PQQ_ABC_bind, ABC transporter, substrate binding
protein, PQQ-dependent alcohol dehydrogenase system.
Members of this protein family are putative
substrate-binding proteins of an ABC transporter family
that associates, in gene neighborhood and phylogenomic
profile, with pyrroloquinoline-quinone (PQQ)-dependent
degradation of certain alcohols, such as 2-phenylethanol
in Pseudomonas putida U [Transport and binding proteins,
Carbohydrates, organic alcohols, and acids].
Length = 347
Score = 28.8 bits (65), Expect = 3.5
Identities = 20/80 (25%), Positives = 26/80 (32%), Gaps = 16/80 (20%)
Query: 166 AQLKAEEKRAALPLVRSQGLIGVTFTPRVFPTPMRESTAPEEEEWLQK-QAEARQACGFI 224
A+L + +G TF + E P E+ L QA Q F
Sbjct: 17 ARLALADNNTTG------RFLGQTFA-------LDEVAVPPPEDLLAALQALLAQGVRFF 63
Query: 225 AADLRPEE--NNPDWVKAKG 242
DL + D KAKG
Sbjct: 64 VLDLPAADLLALADAAKAKG 83
>gnl|CDD|237426 PRK13558, PRK13558, bacterio-opsin activator; Provisional.
Length = 665
Score = 28.3 bits (63), Expect = 5.7
Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 16/72 (22%)
Query: 124 NYECNGNTR------APCGDEDAPKVSNEKEIQNKHKAMMDKITRRVRAQLKAEEKRAAL 177
NY +G+T AP DED V++ Q +T R A+L + +R L
Sbjct: 228 NYRKDGSTFWNQVDIAPIRDEDG-TVTHYVGFQTD-------VTERKEAELALQRERRKL 279
Query: 178 P--LVRSQGLIG 187
L R +GL+
Sbjct: 280 QRLLERVEGLVN 291
>gnl|CDD|205692 pfam13514, AAA_27, AAA domain. This domain is found in a number of
double-strand DNA break proteins. This domain contains a
P-loop motif.
Length = 1118
Score = 28.2 bits (63), Expect = 6.2
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 59 EEASRIRLENNEAEFELIKSEQAMWDE 85
EEA+R RLE E E E+++ A E
Sbjct: 563 EEAARRRLEQLEKELEVLELALAALRE 589
>gnl|CDD|172457 PRK13951, PRK13951, bifunctional shikimate kinase/3-dehydroquinate
synthase; Provisional.
Length = 488
Score = 27.6 bits (61), Expect = 8.3
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 12 QTPSKVFITVPLYNVPTHKVDVFTSESYIKLHYGNYIFEKLLLRPIVEEASRIRL 66
+ P V I + + ++ VFT+E K+ YG Y+ E LL P EE +
Sbjct: 169 EKPHLVKIILGGFKRVRNEELVFTTERVEKI-YGRYLPENRLLFPDGEEVKTLEH 222
>gnl|CDD|147051 pfam04698, MOBP_C-Myrip, Myelin-associated oligodendrocytic basic
protein (MOBP). MOBP is abundantly expressed in central
nervous system myelin, and shares several
characteristics with myelin basic protein (MBP), in
terms of regional distribution and function. This family
is the middle and C-terminal regions of MOBP which has
been shown to be essential for normal arrangement of the
radial component in central nervous system myelin. Most
member-proteins carry a FVHE-PHD type zinc-finger at
their N-terminus.
Length = 710
Score = 27.8 bits (61), Expect = 9.3
Identities = 27/115 (23%), Positives = 44/115 (38%), Gaps = 13/115 (11%)
Query: 120 ALSGNYECNGNTRAPCGDEDAPKVSNEKEIQNKHKAMMDKITRRVRAQLKAEEKRAALPL 179
A S + + N A C D + + +E +A + + R+ AE+
Sbjct: 288 AASPSSALSPNPEAMCSDSETSSAGSSREA--GCQAKLSWLQRKAPKNPAAEK------- 338
Query: 180 VRSQGLIGVTFTPRVFPTPMRESTAPEEEEWLQKQAEARQACGFIAADLRPEENN 234
+ G + V F P+ +S+ PEE R+A + A L PEE N
Sbjct: 339 MPLHGELDVNFNPQAAGGETSDSSDPEE----ALHTADRRARRWRRARLGPEEPN 389
>gnl|CDD|240333 PTZ00257, PTZ00257, Glycoprotein GP63 (leishmanolysin);
Provisional.
Length = 622
Score = 27.7 bits (61), Expect = 9.4
Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 10/78 (12%)
Query: 65 RLENNEAEFELIKSEQAMWDEKKDKRSKEAVSVQMKLETQEQTDVSNMKERQKWEALSGN 124
R+ N+ F +E + +EK+D + V + Q V ++ RQ + G+
Sbjct: 129 RVSNHAGAFVTCTAEDILTEEKRD------ILVSYLIPQALQLHVERLRVRQ----VQGS 178
Query: 125 YECNGNTRAPCGDEDAPK 142
+ G T CGD PK
Sbjct: 179 WRVTGMTGPICGDFKVPK 196
>gnl|CDD|203428 pfam06350, HSL_N, Hormone-sensitive lipase (HSL) N-terminus. This
family consists of several mammalian hormone-sensitive
lipase (HSL) proteins (EC:3.1.1.-). Hormone-sensitive
lipase, a key enzyme in fatty acid mobilisation, overall
energy homeostasis, and possibly steroidogenesis, is
acutely controlled through reversible phosphorylation by
catecholamines and insulin.
Length = 315
Score = 27.4 bits (61), Expect = 9.7
Identities = 12/28 (42%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 246 FRDGNYLGAVSAYSHGL-QLCPNLACLY 272
FR + + V AY H L QL A LY
Sbjct: 102 FRKAHNVKEVEAYCHALCQLR---ALLY 126
>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat.
Length = 78
Score = 25.8 bits (57), Expect = 9.8
Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 7/56 (12%)
Query: 242 GDQMFRDGNYLGAVSAYSHGLQLC-------PNLACLYSNRAAAHLALNNLHKAVD 290
+ R G+Y A+ L+L P A +N A +LAL + +A++
Sbjct: 12 ALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALGDYDEALE 67
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
0.315 0.129 0.378
Gapped
Lambda K H
0.267 0.0659 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,818,387
Number of extensions: 1397604
Number of successful extensions: 1458
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1438
Number of HSP's successfully gapped: 57
Length of query: 296
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 200
Effective length of database: 6,679,618
Effective search space: 1335923600
Effective search space used: 1335923600
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 (21.6 bits)
S2: 59 (26.7 bits)