To improve security and privacy, we are moving our web pages and services from HTTP to HTTPS.
To give users of web services time to transition to HTTPS, we will support separate HTTP and HTTPS services until the end of 2017.
From January 2018 most HTTP traffic will be automatically redirected to HTTPS. [more...]
View this page in https
HAMAP profiles: User Manual for the Web View

The HAMAP family profiles are used to determine family membership of protein sequences. They are automatically generated from manually curated seed alignments of trusted family members of orthologous proteins using a PROSITE procedure. The profiles can be displayed in a user-friendly Web View which consists of the following two main sections and associated sub-sections.





General profile information

Accession
This section indicates the accession number of the family profile, in the form MF_xxxxx.

Entry name
This section provides the short name of the family profile.

Entry type
This section indicates the type of the entry. HAMAP family profiles are stored in PROSITE format and are always of the type MATRIX.

Date
This section indicates the date the last time the family profile was modified.

Version
This section indicates the version of the family profile.

Description
This section provides a description of the family profile, usually giving the recommended protein name of the protein family members matched by the profile.

Taxonomic range
This section indicates the taxonomic coverage of the family profile. It lists all major kingdoms (Archaea, Bacteria, Eukaryota and Viruses) that contain hits to the family profile.

InterPro
This section contains a cross-reference to InterPro, linking to the InterPro record for this family profile.

Associated rule(s)
This section indicates the HAMAP annotation rule(s) that is (are) associated to the family profile. It provides the rule accession number (clickable to access the rule), the rule short name as well as the taxonomic scope of each rule.

Links
On the right hand of the 'General Profile Information' section, we provide links to:
  • The actual family classification profile.
  • The seed alignment that was used to generate the profile with highlighted features from the annotation rule.

Statistics

Note: data from HAMAP may differ from that provided by UniProtKB due to differing release cycles.

Number of hits
In this section, the count of profile hits is indicated for the two sections of UniProtKB:
  • Hits in UniProtKB/Swiss-Prot, which are manually annotated and reviewed.
  • Hits in UniProtKB/TrEMBL, which are automatically annotated and are not reviewed.
Taxonomic distribution
In this section, the count of profile hits in UniProtKB is indicated for each major kingdom.

Links
On the right hand of the 'Statistics' section, we provide links to:
  • An interactive, graphical view of the score distribution of matching proteins in UniProtKB, including those that fall below the trusted cutoff.
  • An expandable view of the taxonomic distribution of matching proteins in UniProtKB.
  • The distribution (presence/absence) of matches on a taxonomic tree of UniProtKB complete proteomes.