===== ===== ===== ===== ===== ===== ===== ===== ===== ===== ===== ===== 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 24.0 Jun 27, 2003 including 1,429,344 entries, 441,769,888 residues This is a release of DDBJ Amino Acid Sequence Database (DAD). This database has been produced by extracting all translated sequences from the release 54 of the DDBJ/EMBL/GenBank entries (June 2003). 1. DAD Files DAD entries are stored in 17 separate files according to the classification of the organisms from which the original DNA sequences are derived. These 17 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 suffix ".DAD" in the DAD standard format, and those with suffix ".DAD.fasta" in a FASTA-compatible format. 2. Recent changes 1) TPA data are provided in a separate file (ddbjtpa.DAD) from the present release. 2) The Locus line is changed from the present release as follows: LOCUS BAA21794.1 263 aa PRT BCT 05-FEB-1999 Positions Contents --------- -------- 01-05 'LOCUS' 06-12 space 13-28 Locus name 29-29 space 30-40 Length of sequence, right-justified 41-41 space 42-43 aa 44-47 space 48-53 'PRT' 54-64 space 65-67 Division code 68-68 space 69-79 Date, in the form DD-MMM-YYYY (e.g., 15-MAR-1991) --------------------- 3) Some information on introns is newly added from the present release. It is given as "intron_pos" in the Feature/Qualifiers. Examples: intron_pos 142:1 (2/12) means that the 2nd intron among 12 in total is located between the 1st and 2nd bases of the 142th codon (amino acid residue). intron_pos 228:0 (4/12) means that the 4th intron among 12 in total is located between the 227th and 228th codons (between the 3rd base of the 227th codon and the 1st base of the 228th codon). 3. Format of DAD Entries The standard format of DAD is almost the same as that of the DDBJ nucleotide sequence database except for those described below. Accession numbers of the DAD entries are written in the lines labeled as "ACCESSION." An accession number of DAD is comprised of a DDBJ accession number and an integer that begins from 1. These two numbers are combined by a hyphen (-). For example, two amino acid sequences extracted from a DDBJ entry D12345 respectively have accession numbers of D12345-1 and D12345-2. The number is useful for identifying a DAD entry. 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. The other parts of a DAD entry, including FEATURES, are almost the same as those of the corresponding DDBJ entry. 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 PROTEIN_ID 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" /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 1,429,344 total length of sequences 441,769,888 aa average length 309 aa name of longest sequence AJ277892-2 PID:CAD12456.1 length of longest sequence 34,350 aa (AJ277892-2) ====================================================== file no. of entries no. of amino acids ====================================================== ddbjbct 509,632 153,276,382 ddbjest 947 84,797 ddbjhtc 27,274 8,908,650 ddbjhtg 1,884 1,396,291 ddbjhum 105,684 35,287,764 ddbjinv 152,645 56,977,655 ddbjmam 26,452 6,367,502 ddbjpat 23,407 8,093,345 ddbjphg 11,965 2,415,129 ddbjpln 208,014 74,976,696 ddbjpri 10,868 2,231,224 ddbjrod 70,414 23,790,850 ddbjsts 4 314 ddbjsyn 6,908 1,926,920 ddbjtpa 631 271,787 ddbjuna 276 54,960 ddbjvrl 207,014 48,939,015 ddbjvrt 65,325 16,770,607 ====================================================== total 1,429,344 441,769,888 ====================================================== 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)