Protein domains page

In the framework of the PROSITE project, we are constructing generalized profiles in order to describe local homology regions in proteins and make them searchable.

In the course of this work, we frequently notice previously undescribed homology regions that occur in several different otherwise unrelated proteins. These homology regions, which apparently can live in different sequence contexts, frequently confer a specific functionality to the proteins harbouring them.
In some cases, the function of regional homology domains can be inferred by comparing the properties of the host proteins. Detection of these domains in uncharacterized sequences might give valuable clues in assignment of protein function. In other cases, where the biological role of a local homology domain is not known, the delineation and comparison of these regions might still be useful e.g. for finding conserved residues as targets for mutagenesis or for structural studies.

Most of the domains we detect will be included into PROSITE as profile entries. We will also pick a selection of these domains, either new or significantly extended ones, for a more detailed description on one of the following pages. If you would like to make additions or want to discuss related issues, your feedback is always welcome.

The FHA domain [25-Apr-1996]
A putative nuclear signalling domain found in protein kinases and transcription factors. Keywords: fork head, DUN1, RAD53, SPK1, cds1, MEK1, KAPP, NIPP1, Ki-67, fraH, KIAA0170.
The death domain [25-Apr-1996]
A heterodimerization domain present in several proteins involved in apoptotic signal transduction and the NFkB pathway. Keywords: TNFR1, FAS/APO1, NGFR, MORT1/FADD, TRADD, RIP, ankyrin, MyD88, unc-5, unc-44, DAP-kinase, Rb-binding p84, pelle, NFkB, tube.
The PLD domain [25-Apr-1996]
A duplicated sequence motif occuring in phospholipases D and related phosphatidyltransferases, as well as in several other proteins using a ping-pong phosphotransferase mechanism. Keywords: Phospholipase D, phosphatidylserine synthase, cardiolipin synthase, vaccinia virus envelope protein F13L, K4L.
The G-protein desensitation domain [25-Apr-1996]
A common motif in terminating G-protein mediated signals. Keywords: ARK1, GRK, G-protein coupled receptor kinases, egl-10, GAIP, BL34 SST2, flbA, RGP3, RGP4.
The UBA domain [25-Apr-1996]
A sequence motif found in multiple enzyme classes of the ubiquitination pathway. Keywords: Ubiquitin C-terminal hydrolases, Ubiquitin-conjugating enzymes, hyperplastic discs, RAD23, Cbl, SNF1-related kinases, par-1, BS4.
The UBX domain
A sequence motif of unknown function, associated with UBA domains and ub-related proteins. Keywords: UBA, FAF1, undulin, ubiquitin.
The PCI domain
A sequence motif occuring in several subunits of the 26S proteasome, the translation initiation factor eIF3, the COP9 complex and other multi-protein complexes. Keywords: Proteasome, COP9, eIF3, Ikappa-B kinase, ubiquitin
The MPN domain
A sequence motif occuring in several subunits of the 26S proteasome, the translation initiation factor eIF3, and other multi-protein complexes. Keywords: Proteasome, eIF3, COP9, ubiquitin. kinase.
The rhodanese homology domain
A conserved domain present in rhodanese (N- and C-terminal), in the catalytic domain of Cdc25 phosphatase, in the non-catalytic domain of various MAP-kinase phosphatase families, in the non-catalytic domain of several ubquitin hydrolases and in a variety of pro- and eukaryotic stress response proteins. Keywords: Ubiquitin, Cdc25, cell cycle, phage shock.
More Information on generalized profiles and their construction is available on our Profile page. To search the existing collection of generalized profiles with a user-supplied sequence, you can use this form .
Public domain programs to run profile searches on your local computer are available from our FTP server in the directory pftools.

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