MOV05953_土豆_高清视频在线观看兰州经济技术开发区国土资源局JG1603、JG1604、JG1605号宗地修建性详细规划方案设计公开招标公告
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兰州经济技术开发区国土资源局JG1603、JG1604、JG1605号
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&structures
&interactions
&sequences
&architectures
Family: Allatostatin (PF05953)
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Summary: Allatostatin
Pfam includes annotations and additional family information from a range
of different sources. These sources can be accessed via the tabs below.
This tab holds the annotation information that is stored in the Pfam
database. As we move to using Wikipedia as our main source of annotation,
the contents of this tab will be gradually replaced by the Wikipedia
Allatostatin
This family consists of allatostatins, bombystatins, helicostatins, cydiastatins and schistostatin from several insect species. Allatostatins (ASTs) of the Tyr/Phe-Xaa-Phe-Gly Leu/Ile-NH2 family are a group of insect neuropeptides that inhibit juvenile hormone biosynthesis by the corpora allata [].
Literature references
Belles X, Graham LA, Bendena WG, Ding QI, Edwards JP, Weaver RJ, Tobe SS; , Peptides -22.: The molecular evolution of the allatostatin precursor in cockroaches.
This tab holds annotation information from the
InterPro entry
This family consists of allatostatins, bombystatins, helicostatins, cydiastatins and schistostatin from several insect species. Allatostatins (ASTs) of the Tyr/Phe-Xaa-Phe-Gly Leu/Ile-NH2 family are a group of insect neuropeptides that inhibit juvenile hormone biosynthesis by the corpora allata [].
Gene Ontology
The mapping between Pfam and Gene Ontology is provided by InterPro.
If you use this data please
Molecular function
Domain organisation
Below is a listing of the unique domain organisations or architectures in which
this domain is found.
The graphic that is shown by default represents the longest sequence
with a given architecture. Each row contains the following information:
the number of sequences which exhibit this architecture
a textual description of the architecture, e.g. Gla, EGF x 2, Trypsin.
This example describes an architecture with one Gla
domain, followed by two consecutive EGF domains, and
finally a single Trypsin domain
a link to the page in the Pfam site showing information about the
sequence that the graphic describes
description of the protein sequence
the number of residues in the sequence
the Pfam graphic itself.
Note that you can see the family page for a particular domain by
clicking on the graphic. You can also choose to see all sequences which
have a given architecture by clicking on the Show link
in each row.
Finally, because some families can be found in a very large number of
architectures, we load only the first fifty architectures by default.
If you want to see more architectures, click the button at the bottom
of the page to load the next set.
Loading domain graphics...
This family is a member of clan
which has the following description:
Allatostatins are pleiotropic neuropeptides.
In some insects they are known to inhibit the synthesis of juvenile hormone, an important regulator of development and reproduction.
The full role of allatostatins in hormone production is still unclear [1].
The clan contains the following 2 members:
Allatostatin
Alignments
We store a range of different sequence alignments for families. As well
as the seed alignment from which the family is built, we provide the
full alignment, generated by searching the sequence database
() using the
family HMM. We also generate alignments using four
(RP) sets, the UniProtKB sequence database,
the NCBI sequence database, and our metagenomics sequence database.
There are various ways to view or download the sequence alignments that
we store. We provide several sequence viewers and a plain-text
Stockholm-format file for download.
Alignment types
We make a range of alignments for each Pfam-A family:
the curated alignment from which the HMM for the family is
the alignment generated by searching the sequence database
using the HMM
RP15/RP35/RP55/RP75
15%, 35%, 55% and 75% co-membership thresholds
alignment generated by searching the UniProtKB sequence database
using the family HMM
alignment generated by searching the NCBI sequence database
using the family HMM
alignment generated by searching the metagenomics sequence database
using the family HMM
You can see the alignments as HTML or in three different sequence
a Java applet developed at the University of Dundee. You will
before running jalview
an HTML page showing the whole alignment.Please
note: full Pfam alignments can be very large. These
HTML views are extremely large and often cause problems for browsers.
Please use either jalview or the Pfam viewer if you have trouble
viewing the HTML version
PP/Heatmap
an HTML-based representation of the alignment, coloured according to
the posterior-probability (PP) values from the HMM. As for the standard HTML
view, heatmap alignments can also be very large and slow to render.
Reformatting
You can download (or view in your browser) a text representation of a
Pfam alignment in various formats:
You can also change the order in which sequences are listed in the
alignment, change how insertions are represented, alter the characters
that are used to represent gaps in sequences and, finally, choose
whether to download the alignment or to view it in your browser
Downloading
You may find that large alignments cause problems for the viewers and
the reformatting tool, so we also provide all alignments in Stockholm
format. You can download either the plain text alignment, or a gzipped
version of it.
View options
We make a range of alignments for each Pfam-A family. You can see a
description of each
You can view these alignments in various ways but please note that some
types of alignment are never generated while others may not be available
for all families, most commonly because the alignments are too large to
Representative proteomes
UniProt(642)
PP/heatmap
available,
not generated,
& not available.
Format an alignment
Representative proteomes
UniProt(642)
Alignment:
Alphabetical
Inserts lower case
All upper case
Gaps as "." or "-" (mixed)
Gaps as "." (dots)
Gaps as "-" (dashes)
No gaps (unaligned)
Download/view:
Download options
We make all of our alignments available in Stockholm format.
You can download them here as raw, plain text files or as
-compressed files.
Representative proteomes
UniProt(642)
Raw Stockholm
You can also
a FASTA format file containing the
full-length sequences for all sequences in the full alignment.
HMM logos is one way of visualising profile HMMs. Logos provide a
quick overview of the properties of an HMM in a graphical form. You can
see a more detailed description of HMM logos and find out how you can
interpret them
If you find these logos useful in your own work, please consider citing
the following article:
B. Schuster-Böckler, J. Schultz, S. Rahmann
BMC Bioinformatics&(2004)
This page displays the phylogenetic tree for this family's seed
alignment. We use
to calculate neighbour join trees with a local bootstrap based on 100
resamples (shown next to the tree nodes). FastTree calculates
approximately-maximum-likelihood phylogenetic trees from our seed
alignment.
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Note: You can also download the
for the tree.
Curation and family details
This section shows the detailed information about the Pfam family. You
can see the definitions of many of the terms in this section in the
and a fuller
explanation of the scoring system that we use in the
section of the
help pages.
HMM information
Model length:
Family (HMM) version:
the raw HMM for this family
Species distribution
Weight segments by...
Change the size of the sunburst
Colour assignments
Other&sequences
Unclassified
Unclassified&sequence
Selections
Align selected sequences to HMM
Generate a FASTA-format file
Clear selection
Storing selection&
Currently selected:
0 sequences
Note: selection tools show results in pop-up windows.
Please disable pop-up blockers.
This visualisation provides a simple graphical representation of
the distribution of this family across species. You can find the
original interactive tree in the
adjacent tab.
This chart is a modified &sunburst& visualisation of
the species tree for this family. It shows each node in the
tree as a separate arc, arranged radially with the superkingdoms
at the centre and the species arrayed around the outermost
How the sunburst is generated
The tree is built by considering the taxonomic lineage of each
sequence that has a match to this family. For each node in the
resulting tree, we draw an arc in the sunburst. The radius of
the arc, its distance from the root node at the centre of the
sunburst, shows the taxonomic level (&superkingdom&,
&kingdom&, etc). The length of the arc represents
either the number of sequences represented at a given level, or
the number of species that are found beneath the node in the
tree. The weighting scheme can be changed using the sunburst
In order to reduce the complexity of the representation, we
reduce the number of taxonomic levels that we show. We consider
only the following eight major taxonomic levels:
superkingdom
Colouring and labels
Segments of the tree are coloured approximately according to
their superkingdom. For example, archeal branches are coloured
with shades of orange, eukaryotes in shades of purple, etc. The
colour assignments are shown under the sunburst controls. Where
space allows, the name of the taxonomic level will be written on
the arc itself.
As you move your mouse across the sunburst, the current node
will be highlighted. In the top section of the controls panel we
show a summary of the lineage of the currently highlighed node.
If you pause over an arc, a tooltip will be shown, giving the
name of the taxonomic level in the title and a summary of the
number of sequences and species below that node in the tree.
Anomalies in the taxonomy tree
There are some situations that the sunburst tree cannot easily
handle and for which we have work-arounds in place.
Missing taxonomic levels
Some species in the taxonomic tree may not have one or more of
the main eight levels that we display. For example, Bos
taurus is not assigned an order in the NCBI taxonomic tree.
In such cases we mark the omitted level with, for example,
&No order&, in both the tooltip and the lineage
Unmapped species names
The tree is built by looking at each sequence in the full
alignment for the family. We take the name of the species given
by UniProt and try to map that to the full taxonomic tree from
NCBI. In some cases, the name chosen by UniProt does not map to
any node in the NCBI tree, perhaps because the chosen name is
listed as a synonym or a misspelling in the NCBI taxonomy.
So that these nodes are not simply omitted from the sunburst
tree, we group them together in a separate branch (or segment of
the sunburst tree). Since we cannot determine the lineage for
these unmapped species, we show all levels between the
superkingdom and the species as &uncategorised&.
Sub-species
Since we reduce the species tree to only the eight main
taxonomic levels, sequences that are mapped to the sub-species
level in the tree would not normally be shown. Rather than leave
out these species, we map them instead to their parent species.
So, for example, for sequences belonging to one of the
Vibrio cholerae sub-species in the NCBI taxonomy, we
show them instead as belonging to the species Vibrio
Too many species/sequences
For large species trees, you may see blank regions in the outer
layers of the sunburst. These occur when there are large numbers
of arcs to be drawn in a small space. If an arc is less than
approximately one pixel wide, it will not be drawn and the space
will be left blank. You may still be able to get some
information about the species in that region by moving your mouse
across the area, but since each arc will be very small, it will
be difficult to accurately locate a particular species.
Loading sunburst data...
Expand tree...
Annotation
highlighting
of species in seed
Key: species,
sequences,
Download tree
a text representation
Selected sequences
(Uncheck all)
graphically
sequence accessions
sequences in FASTA format
The tree shows the occurrence of this domain across different species.
Species trees
We show the species tree in one of two ways. For smaller trees we try
to show an interactive representation, which allows you to select
specific nodes in the tree and view them as an alignment or as a set
of Pfam domain graphics.
Unfortunately we have found that there are problems viewing the
interactive tree when the it becomes larger than a certain limit.
Furthermore, we have found that Internet Explorer can become
unresponsive when viewing some trees, regardless of their size.
We therefore show a text representation of the species tree when the
size is above a certain limit or if you are using Internet Explorer
to view the site.
If you are using IE you can still load the interactive tree by
clicking the &Generate interactive tree& button, but please
be aware of the potential problems that the interactive species tree
can cause.
Interactive tree
For all of the domain matches in a full alignment, we count the
number that are found on all sequences in the alignment.
This total is shown in the purple box.
We also count the number of unique sequences on which each domain is
found, which is shown in green.
Note that a domain may appear multiple times on the
same sequence, leading to the difference between these two numbers.
Finally, we group sequences from the same organism according to the
code that is assigned by
allowing us to count the number of distinct sequences on which the
domain is found. This value is shown in the
pink boxes.
We use the NCBI species tree to group organisms according to their
taxonomy and this forms the structure of the displayed tree.
Note that in some cases the trees are too large (have
too many nodes) to allow us to build an interactive tree, but in most
cases you can still view the tree in a plain text, non-interactive
representation. Those species which are represented in the seed
alignment for this domain are
highlighted.
You can use the tree controls to manipulate how the interactive tree
is displayed:
show/hide the summary boxes
highlight species that are represented in the seed alignment
expand/collapse the tree or expand it to a given depth
select a sub-tree or a set of species within the tree and view
them graphically or as an alignment
save a plain text representation of the tree
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Please note: for large trees this can take some time.
While the tree is loading, you can safely switch away from this
tab but if you browse away from the family page entirely, the tree
will not be loaded.
Structures
For those sequences which have a structure in the
use the mapping between , PDB and Pfam coordinate
systems from the
group, to allow us to map
Pfam domains onto UniProt sequences and three-dimensional protein
structures. The table below
shows the structures on which the Allatostatin
domain has been found. There are 2
instances of this domain found in the PDB. Note that there may be
multiple copies of the domain in a single PDB structure, since many
structures contain multiple copies of the same protein seqence.
Loading structure mapping...