Fichier NCBI bioinformatique Connaissances Scientifiques Generales Cours module niveau L1 Angers Emmanuel Jaspard

Fichier GenPept de Genbank - NCBI

1. Go to Entrez from NCBI and enter "glutamate dehydrogenase lactobacillus".

Click on the results (85) from : "Protein: sequence database".

Select the "GenPept (full)" (menu "Display Settings") report and click on "NP_784837".

2. The organism is clearly indicated. The hypertext link goes to the full taxonomy for this organism and others.

3. The diferent accession numbers cited :

NP_784837 : refers to the amino acid sequence (448 amino acids) of this isoform of GDH of Lactobacillus plantarum (WCFS1)

NP_784837.1 : several sequences (either polypetidic or nucleotidic) may be deposited by the authors. Often, it corresponds to corrections or completion (full length sequences) of previouly deposited sequences . The files have ".1", ".2", ... extension.

GI:28377945 : GenInfo Identifier, refers to the coding sequence (CDS) of GDH deposited in the Genbank database

ACCESSION NC_004567.1 : refers to the complete genome of Lactobacillus plantarum (WCFS1), that contains the coding sequence of GDH (NP_784837)

MEDLINE 22480296 & PUBMED 12566566 : bibliographic reference. In this case, the article is "Complete genome sequence of Lactobacillus plantarum WCFS1" Kleerebezem M, et al. (2003) P.N.A.S. 100

VALIDATED REFSEQ : The Reference Sequence (RefSeq) collection

4. The other data are self - explaining. Notice that the EC number could be mentionned (bottom of the page). In this case, it is a GDH EC 1.4.1.3 isoform.