===== ===== ===== ===== ===== ===== ===== ===== ===== ===== ===== ===== THIS DATABASE MAY BE COPIED AND REDISTRIBUTED WITHOUT PERMISSION ON THE CONDITION THAT ALL THE STATEMENTS IN THIS RELEASE NOTE ARE REPRODUCED IN EACH COPY. ===== ===== ===== ===== ===== ===== ===== ===== ===== ===== ===== ===== DDBJ Amino Acid Sequence Database (DAD) Release 9.0 Nov 26, 1999 including 445,579 entries, 136,352,568 residues This is a release of DDBJ Amino Acid Sequence Database (DAD). This database was created by extracting all translated sequences from the DDBJ/EMBL/GenBank entries. This release was made from the DDBJ release 39 (October 1999). 1. DAD Files DAD entries are stored in 16 separate files according to the organisms from which amino acid sequences are derived. These 16 divisions are the same as those of the DDBJ DNA Database, except that all translated sequences from the EST sequences are put into one file of DAD. Please refer to the release note of the DDBJ release for details (filename: ddbjrel.txt). Also, there are two types of DAD files for each division. Files with suffices ".DAD" are in a standard DAD format, whereas those with suffices ".DAD.fasta" are in a FASTA-compatible format. 2. Important changes From this release, we replace PID with Protein_ID, which shows not only an identification number but also a version number of a protein sequence in DAD. Protein_ID is expressed like AAA12345.1, where the number after the period is the version number. The number is increased by one, when the original DNA sequence is modified and the protein sequence translated is changed as a result. 3. Format of DAD Entries The standard format of DAD is almost the same as that of the DDBJ nucleotide sequence database. There are, however, important differences. Some of them are described below. Accession numbers of the DAD entries are written on the lines labeled as "ACCESSION." An accession number of DAD is comprised of a DDBJ accession number and a consecutive integer that begins from 1. These two numbers are combined by a hyphen (-). For example, amino acid sequences extracted from a DDBJ entry D12345 have accession numbers D12345-1, D12345-2, etc. This number is quite useful for identifying all DAD entries. An amino acid sequence begins from the next line of "BEGIN." Up to sixty amino acids are written in one line. Following the amino acid sequence, there is a double slash (//) which means the end of the entry. LOCUS line contains locus name, length of protein, molecular type (this is always "PRT"), division name, and date of release of DNA counterpart. DEFINITION line contains species name and protein name. Other parts of DAD entries, including FEATURES, are almost the same as those of the DDBJ entries, from which DAD entries were made. 4. A Sample of DAD Entries Below is a typical sample of DAD entries. This might be useful for understanding its format and contents. ----- ----- ----- ----- sample begin ----- ----- ----- ----- LOCUS AB000714 220 aa PRT HUM 27-OCT-1997 DEFINITION Homo sapiens RVP1 protein. ACCESSION AB000714-1 PID BAA22986.1 SOURCE Homo sapiens tissue_lib:lung cDNA to mRNA. ORGANISM Homo sapiens Eukaryotae; Metazoa; Chordata; Vertebrata; Mammalia; Eutheria; Primates; Catarrhini; Hominidae; Homo. REFERENCE 1 AUTHORS Katahira,J. TITLE Direct Submission JOURNAL Submitted (26-JAN-1997) to the DDBJ/EMBL/GenBank databases. Jun Katahira, Institute for Microbial Diseases, Osaka University, Department of Bacterial Toxinology; 3-1, Yamadaoka, Suita, Osaka 565, Japan (E-mail:katahira@biken.osaka-u.ac.jp, Tel:81-6-879-8285, Fax:81-6-879-8283) STANDARD full staff_review REFERENCE 2 AUTHORS Katahira,J., Sugiyama,H., Inoue,N., Horiguchi,Y., Matsuda,M. and Sugimoto,N. TITLE Clostridium perfringens enterotoxin utilizes two structurally related membrane proteins as functional receptors in vivo JOURNAL J. Biol. Chem. 272, 26652-26658 (1997) STANDARD full staff_review COMMENT FEATURES Qualifiers source /organism="Homo sapiens" /sequenced_mol="cDNA to mRNA" /tissue_lib="lung" protein /gene="hRVP1" /protein_id="BAA22986.1" /transl_table=1 BEGIN 1 MSMGLEITGT ALAVLGWLGT IVCCALPMWR VSAFIGSNII TSQNIWEGLW MNCVVQSTGQ 61 MQCKVYDSLL ALPQDLQAAR ALIVVAILLA AFGLLVALVG AQCTNCVQDD TAKAKITIVA 121 GVLFLLAALL TLVPVSWSAN TIIRDFYNPV VPEAQKREMG AGLYVGWAAA ALQLLGGALL 181 CCSCPPREKK YTATKVVYSA PRSTGPGASL GTGYDRKDYV // ----- ----- ----- ----- sample end ----- ----- ----- ----- 5. Statistics of DAD The following are statistics of this release of DAD. total number of entries 445,579 total length of sequences 136,352,568 aa average length 306.0 aa name of longest sequence X90568-1 PID:CAA62188.1 length of longest sequence 26,926 aa (X90568-1) ====================================================== file no. of entries no. of amino acids ====================================================== ddbjbct 121,177 35,930,948 ddbjest 973 88,260 ddbjhtg 33 13,315 ddbjhum 42,278 13,562,587 ddbjinv 49,476 18,681,612 ddbjmam 12,343 3,187,019 ddbjpat 4,137 1,172,959 ddbjphg 4,896 974,839 ddbjpln 69,836 26,680,248 ddbjpri 3,202 668,646 ddbjrod 32,965 10,355,579 ddbjsts 10 574 ddbjsyn 3,009 730,774 ddbjuna 253 49,842 ddbjvrl 80,547 19,026,927 ddbjvrt 20,444 5,228,439 ====================================================== total 445,579 136,352,568 ====================================================== DNA Data Bank of Japan Center for Information Biology National Institute of Genetics Mishima 411-8540, Japan Phone: +81 559 81 6853 FAX: +81 559 81 6849 E-mail: ddbj@ddbj.nig.ac.jp (for general inquiry) WWW: http://www.ddbj.nig.ac.jp (for DDBJ WWW server)