bactpepdb.rpbs.univ-paris-diderot.fr

BactPepDB

BactPepDB is a resource to assist the identification of new bacterial peptides. It corresponds to the re-annotation of all complete prokaryotic genomes available in RefSeq. For peptides of size comprised between 10 and 80 residues. These predicted peptides are then classified as:. Previously identified in RefSeq. Potential pseudogenes (see definition below),. A brief overview of the database interface and its functionalities can be found at the bottom of the Help page. Genuses, 1,226. Species and 2,240.

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BactPepDB | bactpepdb.rpbs.univ-paris-diderot.fr Reviews

<META> DESCRIPTION

BactPepDB is a resource to assist the identification of new bacterial peptides. It corresponds to the re-annotation of all complete prokaryotic genomes available in RefSeq. For peptides of size comprised between 10 and 80 residues. These predicted peptides are then classified as:. Previously identified in RefSeq. Potential pseudogenes (see definition below),. A brief overview of the database interface and its functionalities can be found at the bottom of the Help page. Genuses, 1,226. Species and 2,240.

<META> KEYWORDS

1 links

2 bactpepdb

3 bacteria peptide database

4 introduction

5 methodology

6 references

7 intergenic

8 entity overlapping

9 peptides from 557

10 strains

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BactPepDB | bactpepdb.rpbs.univ-paris-diderot.fr Reviews

https://bactpepdb.rpbs.univ-paris-diderot.fr

BactPepDB is a resource to assist the identification of new bacterial peptides. It corresponds to the re-annotation of all complete prokaryotic genomes available in RefSeq. For peptides of size comprised between 10 and 80 residues. These predicted peptides are then classified as:. Previously identified in RefSeq. Potential pseudogenes (see definition below),. A brief overview of the database interface and its functionalities can be found at the bottom of the Help page. Genuses, 1,226. Species and 2,240.

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bactpepdb.rpbs.univ-paris-diderot.fr

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BactPepDB

http://bactpepdb.rpbs.univ-paris-diderot.fr/cgi-bin/links.pl

Links to other peptide databases. Although we intend to keep this list up to date, we apologize for any miss and we welcome any suggestion. A database of food derived antihypertensive peptides. A database of antimicrobial peptides and program searching for fragments with sequences similar to antimicrobial peptides in query protein sequence. A database of antimicrobial and anticancer peptides. A database of toxic peptides and proteins from spider venoms. A database of antibacterial peptides (bacteriocins).

2

BactPepDB

http://bactpepdb.rpbs.univ-paris-diderot.fr/cgi-bin/help.pl

General information about the data and tools used to create BactPepDB. General statistics about BactPepDB. References and contact informations. Proposes two possibilities to query BactPepDB: the BLASTp search. Stands for identifying sequences of BactPepDB similar to a query; the Simple Bank query. Form stands for direct queries of BactPepDB using multiple criteria. Contains detailed explanations on informations found with BactPepDB and how to use the search engine. Can possibly be used to match a particu...

3

BactPepDB

http://bactpepdb.rpbs.univ-paris-diderot.fr/cgi-bin/index.pl

There are three different ways to query BactPepDB:. Search all the peptides in BactPepDB that match various search criteria using the Simple Bank query. Retrieve sequences of BactPepDB homologous to a query sequence by performing a BLASTp. To a particular peptide entry by entering a BPDB id. Simple Bank Query (? Enter query sequence(s) in RAW or FASTA format (? What is the e-value (? Already annotated peptides only. Stands for peptides already annotated in RefSeq (? How to use regular expressions (?

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bioserv.rpbs.univ-paris-diderot.fr

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http://bioserv.rpbs.univ-paris-diderot.fr/services.html

Provides means to search for 3D sub structures between structures. The search is general: 3DMSS-Sites searches for similar "clouds" of coordinates between sets of coordinates, i.e it is independent on the order of the atoms of the structures. Atomic or residue type compatibilities can be defined to avoid non relevant pairings. Escalier V, Pothier J, Soldano H, Viari A. Pairwise and multiple identification of three-dimensional common substructures in proteins. J Comput Biol. 1998 Spring;5(1):41-56. Among ...

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bactpepdb.rpbs.univ-paris-diderot.fr

BactPepDB

BactPepDB is a resource to assist the identification of new bacterial peptides. It corresponds to the re-annotation of all complete prokaryotic genomes available in RefSeq. For peptides of size comprised between 10 and 80 residues. These predicted peptides are then classified as:. Previously identified in RefSeq. Potential pseudogenes (see definition below),. A brief overview of the database interface and its functionalities can be found at the bottom of the Help page. Genuses, 1,226. Species and 2,240.

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