Part of SWISS-PROT rel. notes of interest to yeast community.

Amos Bairoch BAIROCH at CMU.UNIGE.CH
Thu Nov 18 16:57:46 EST 1993


1) AN EXTRACT OF THE SWISS-PROT RELEASE 27.0 RELEASE NOTES OF INTEREST TO
   THE YEAST COMMUNITY (the full release notes have been posted on
   bionet.proteins).

   A special emphasis on four "model" organisms

   We have selected four organisms that are the target of genome sequencing
   and/or mapping projects and for which we intend to:

   -  Be as  complete as  possible. All sequences available at a given time
      should be  immediatly included  in  SWISS-PROT.  This  also  includes
      sequence corrections and updates.
   -  Provide a high level of annotations.
   -  Cross-references to specialized database(s) that contain, among other
      data, some  genetic information  about the  genes that code for these
      proteins.
   -  Provide specific indices or documents.

   The four organisms selected are:

   o  Caenorhabditis elegans (worm)
   o  Drosophila melanogaster (fly)
   o  Escherichia coli
   o  Saccharomyces cerevisiae (yeast)

   Such a  special effort  has been  going on  for more  than  a  year  for
   Escherichia coli  (thanks to  a very  fruitful  collaboration  with  Ken
   Rudd), it  has started  in this  release for  yeast: about 300 new yeast
   sequences were  entered; about  1500 entries  were reannotated and a new
   document (YEAST.TXT)  is provided  that list yeast entries in SWISS-PROT
   classified by  gene name  and synonym(s).  The next  release will target
   C.elegans thanks  to a collaboration with the group at the Sanger Genome
   Center in  Hinxton (UK).  The Drosophila  "project" should  start a  bit
   later.

   Organism          Database                 Index file
                     X-referenced             provided
   --------------    ----------------------   --------------
   C.elegans         WormPep                  Next release
   D.melanogaster    Flybase                  In preparation
   E.coli            EcoGene                  ECOLI.TXT
   S.cerevisiae      LISTA (in preparation)   YEAST.TXT



2) An example of the content of the file YEAST.TXT:

                                         SWISS-PROT          Sequence
Gene designations                        AC       Entry      lenght
-------------------------------------    ------- ----------  ----------
.
..
...
CUP1; MTH1                               P07215  MTC_YEAST     61
CYB2                                     P00175  CYB2_YEAST   591
CYC1                                     P00044  CYC1_YEAST   109
CYC3                                     P06182  CCHL_YEAST   269
CYC7; CYP3                               P00045  CYC2_YEAST   113
CYC8; SSN6                               P14922  CYC8_YEAST   966
CYH2                                     P02406  RL2A_YEAST   149
CYP1; HAP1                               P12351  CYP1_YEAST  1483
CYR1; CDC35; HSR1; SRA4                  P08678  CYAA_YEAST  2026
CYS3; CYI1; STR1; YAL012; FUN35          P31373  CYS3_YEAST   394
CYT2                                     Q00873  CYT2_YEAST   224
DAL1                                     P32375  ALLA_YEAST   472
DAL2; ALC1                               P25335  ALC_YEAST    343
DAL3                                     P32459  DAL3_YEAST   195
DAL4                                     Q04895  DAL4_YEAST   635
DAL5                                     P15365  DAL5_YEAST   543
DAL80; UGA43                             P26343  DA80_YEAST   269
DAL81; UGA35; DURL                       P21657  DA81_YEAST   970
DAL82; DURM                              P21705  DA82_YEAST   255
...
..
.



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