Prosite

• Contient plus de 1200 motifs protéiques.
• Un motif est exprimé dans Prosite par une sorte d'expression régulière.
• Problème avec les motifs courts: faux positifs. Le concept d'expression régulière ne permet pas de saisir la signification statistique d'une occurrence. Les signatures ou motifs sont de plus souvent exprimés par des méthodes plus fines, comme les profils ou les HMM.
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Un enregistrement Prosite...

PROSITE: PDOC00449 (documentation)

{PDOC00449}
{PS00518; ZINC_FINGER_C3HC4}
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* Zinc finger, C3HC4 type (RING finger), signature *
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A number of eukaryotic and viral proteins  contain a  conserved  cysteine-rich
domain of  40  to  60 residues (called C3HC4 zinc-finger or 'RING' finger) [1]
that binds  two  atoms of zinc, and is probably involved in mediating protein-
protein interactions.  The  3D structure of the zinc ligation system is unique
to the RING domain  and is refered to  as the "cross-brace" motif. The spacing
of the cysteines in such a domain is C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2  to
3)-C-x(2)-C-x(4 to 48)-C-x(2)-C.

Proteins currently  known  to  include  the  C3HC4  domain  are  listed  below
(references are only provided for recently determined sequences).

 - Mammalian   V(D)J   recombination  activating  protein  (gene  RAG1).  RAG1
   activates the rearrangement of immunoglobulin and T-cell receptor genes.
 - Mouse rpt-1. Rpt-1 is a trans-acting factor that regulates  gene expression
   directed by the promoter region  of the interleukin-2 receptor  alpha chain
   or the LTR promoter region of HIV-1.
 - Human rfp. Rfp is  a developmentally regulated protein that may function in
   male germ cell development. Recombination of the N-terminal section  of rfp
   with a protein tyrosine kinase produces the ret transforming protein.
 - Human 52 Kd Ro/SS-A protein. A protein of unknown function from the Ro/SS-A
   ribonucleoprotein  complex.     Sera  from  patients  with  systemic  lupus
   erythematosus or primary Sjogren's  syndrome  often contain antibodies that
   react with the Ro proteins.
 - Human histocompatibility locus protein RING1.
 - Human PML, a probable transcription factor.  Chromosomal  translocation  of
   PML with  retinoic receptor alpha  creates  a  fusion  protein which is the
   cause of acute promyelocytic leukemia (APL).
 - Mammalian breast cancer type 1 susceptibility protein (BRCA1) [E1].
 - Mammalian cbl proto-oncogene.
 - Mammalian bmi-1 proto-oncogene.
 - Vertebrate CDK-activating kinase (CAK) assembly factor MAT1, a protein that
   stabilizes the  complex  between  the CDK7 kinase and cyclin H (MAT1 stands
   for 'Menage A Trois').
 - Mammalian  mel-18  protein. Mel-18 which is expressed in a variety of tumor
   cells is  a  transcriptional  repressor that recognizes and bind a specific
   DNA sequence.
 - Mammalian peroxisome  assembly factor-1 (PAF-1) (PMP35), which  is somewhat
   involved in the biogenesis of peroxisomes. In humans, defects in PAF-1  are
   responsible for  a  form  of  Zellweger  syndrome,  an  autosomal recessive
   disorder associated with peroxisomal deficiencies.
 - Human MAT1 protein, which interacts with the CDK7-cyclin H complex.
 - Human RING1 protein.
 - Xenopus XNF7 protein, a probable transcription factor.
 - Trypanosoma  protein  ESAG-8  (T-LR),   which   may   be  involved  in  the
   postranscriptional regulation  of  genes  in  VSG  expression  sites or may
   interact with adenylate cyclase to regulate its activity.
 - Drosophila proteins  Posterior Sex  Combs (Psc) and Suppressor two of zeste
   (Su(z)2). The  two proteins belong to the Polycomb group of genes needed to
   maintain the segment-specific repression of homeotic selector genes.
 - Drosophila  protein  male-specific  msl-2,  a  DNA-binding protein which is
   involved in   X   chromosome   dosage   compensation   (the   elevation  of
   transcription of the male single X chromosome).
 - Arabidopsis  thaliana  protein  COP1 which is involved in the regulation of
   photomorphogenesis.
 - Fungal DNA repair proteins RAD5, RAD16, RAD18 and rad8.
 - Herpesviruses trans-acting transcriptional protein ICP0/IE110. This protein
   which has  been  characterized  in many different herpesviruses is a trans-
   activator and/or  -repressor  of  the expression of many viral and cellular
   promoters.
 - Baculoviruses protein CG30.
 - Baculoviruses major immediate early protein (PE-38).
 - Baculoviruses immediate-early regulatory protein IE-N/IE-2.
 - Caenorhabditis elegans hypothetical proteins F54G8.4, R05D3.4 and T02C1.1.
 - Yeast hypothetical proteins YER116c and YKR017c.

As a signature pattern for the C3HC4 finger, we selected the central region of
the domain.

-Consensus pattern: C-x-H-x-[LIVMFY]-C-x(2)-C-[LIVMYA]
-Sequences known to belong to this class detected by the pattern: ALL,  except
 for rad8.
-Other sequence(s) detected in SWISS-PROT: 5.
-Last update: November 1997 / Pattern and text revised.

[ 1] Borden K.L.B., Freemont P.S.
     Curr. Opin. Struct. Biol. 6:395-401(1996).
[E1] http://bioinformatics.weizmann.ac.il/hotmolecbase/entries/brca1.htm

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