Index of /ftp/pub/databases/modbase/projects/genomes/H_sapiens/2013

[ICO]NameLast modifiedSizeDescription
[PARENTDIR]Parent Directory   -  
[TXT]H_sapiens_2013.summa..>2013-10-25 07:29 33M 
[ ]Homo_sapiens.GRCh37...>2013-10-26 11:05 8.3M 
[ ]Homo_sapiens.GRCh37...>2013-10-26 11:05 22M 
[ ]Homo_sapiens_refseq...>2013-10-26 11:05 4.2M 
[ ]H_sapiens_2013_refse..>2013-11-05 01:55 2.1M 
[ ]ModBase_H_sapiens_20..>2013-11-05 01:56 1.6G 
[ ]H_sapiens_2013_GRCh3..>2013-11-05 16:43 4.2M 
[ ]ModBase_H_sapiens_20..>2013-11-05 17:01 2.7G 
[ ]H_sapiens_2013_GRCh3..>2013-11-06 01:20 2.4M 
[ ]ModBase_H_sapiens_20..>2013-11-06 01:20 1.4G 
[ ]H_sapiens_2013_dssp...>2014-03-12 08:37 1.3G 
[ ]H_sapiens_2013.tar.xz 2014-03-12 08:38 4.3G 
The sequences in the Homo_sapiens_2013 dataset come from both RefSeq and Ensembl:

The Translation tables contain database ids and the ModPipe sequence id. To
extract a subset, use the translation table and the sequence ids. 

Number of unique sequences:
All datasets combined:
   Translation Table: 129676 H_sapiens_2013.unq
   All Models and Alignments: H_sapiens_2013.tar.xz
   DSSP results for all models: H_sapiens_2013_dssp.tar.xz

Ensembl: 
    Pep dataset:
    Sequences: Homo_sapiens.GRCh37.70.pep.all.fa
    Translation Table: 85111 Homo_sapiens.GRCh37.70.pep.all.unq
    All Models and Alignmnets:  ModBase_H_sapiens_2013_GRCh37.70.pep.all.tar.xz
    Summary of all Models and Alignments:  H_sapiens_2013_GRCh37.70.pep.all.summary.txt.xz
 
    Ab-initio dataset:
    Sequences: Homo_sapiens.GRCh37.70.pep.abinitio.fa
    Translation Table: 46965 Homo_sapiens.GRCh37.70.pep.abinitio.unq
    Models and Alignments: ModBase_H_sapiens_2013_GRCh37.70.pep.abinitio.tar.xz
    Summary of all Models and Alignments: H_sapiens_2013_GRCh37.70.pep.abinitio.summary.txt.xz

RefSeq:
    Sequences From: ftp://ftp.ncbi.nlm.nih.gov/genomes/H_sapiens/protein/protein.fa.gz
    Translation table: 31182 Homo_sapiens_refseq.Jan_23_2013.protein.unq
    All Models and Alignments: ModBase_H_sapiens_2013_refseq.tar.xz
    Summary of all Models and Alignments: H_sapiens_2013_refseq.summary.txt.xz

Models are provided in PDB format. If you prefer mmCIF files, you can use the modbase_pdb_to_cif.py script from the modbase_utils GitHub repository to generate them. ModBase mmCIF files are compliant with the PDBx and ModelCIF mmCIF dictionaries.