(High-quality Automated and Manual Annotation of microbial Proteomes)
is a project developed by the Swiss-Prot group. HAMAP aims to automatically annotate
a significant percentage of proteins originating from microbial genome sequencing projects.
"HAMAP families"are a collection of manually
curated microbial protein families used for automatic annotation.
Here, we present a release of HAMAP structured under the
ACNUC sequence database management system.
It allows one to select sets of HAMAP families or sequences,
and to visualize multiple alignments and phylogenetic trees.
The ACNUC release of HAMAP is build in the same way as HOBACGEN (for more details, click
here, or see the paper on HOBACGEN by Perrière et al. Genome Res 2000 10:379-85).
The database itself contains all protein sequences from Swiss-Prot+TrEMBL
found in the HAMAP families,with some annotation modifications.
It contains also all the corresponding nucleotide sequences in EMBL.
Multiple alignments used for the automatic annotations have been associated to
each family, then phylogenetic trees have been computed for each family.
Sequences and related information have been structured in an ACNUC database.
It is possible to query the database on this server through the
WWW-Query system. Note that
HAMAP is splitted into two databases on this server:
contains the protein sequences from Swiss-Prot + TrEMBL while
contains the nucleotide sequences from EMBL.
Important note: the Swiss-Prot entries such as those found in this database are
copyrighted. They are produced through a collaboration between the Swiss Institute
of Bioinformatics and the European Bioinformatics Institute. There are no restrictions
on its use by non-profit institutions as long as its content is in no way modified.
Usage by and for commercial entities requires a
(See or send an Email to firstname.lastname@example.org).
Contact and reference
If you encounter some problems when using the ACNUC version of HAMAP, please
contact Laurent Duret or Simon Penel.
Also we welcome any comments or suggestions on the database and/or its
If you wish more information about HAMAP itself, please follow this link.
This project is supported by the European Commission (
contract-no. QLRI-CT-2001-00015, RTD programme
"Quality of Life and Management of Living
Resources") as a part of the Integr8 project.
If you have problems or comments...
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