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-====== CATH Data ======+====== CATH Data Downloads ======
  
-This page provides information on the data files that are available to download from CATH.+This page provides information on the data files that are available to download from the [[ftp://orengoftp.biochem.ucl.ac.uk/cath | CATH FTP site]].
  
-[[http://release.cathdb.info]]+See [[:index#cath_releases|CATH Releases]] for more information on CATH and CATH-Plus.
  
-You can also look at the [[../release_notes|release notes]] for more information on what happened in each release.+===== CATH (daily snapshot) ===== 
 + 
 +ftp://orengoftp.biochem.ucl.ac.uk/cath/releases/daily-release/newest/ 
 + 
 +^ File name ^ Description ^ 
 +| cath-b-newest-all.gz | List the latest domain boundaries and superfamily (C.A.T.H) annotations for all CATH domains | 
 +| cath-b-newest-names.gz | Provides the names for each node in the CATH hierarchy |  
 +| cath-b-newest-latest-release.gz | List the latest domain boundaries and superfamily annotations for CATH domains in the most recent release of CATH-Plus | 
 +| cath-b-newest-putative.gz | List the latest domain boundaries and superfamily annotations for CATH domains released since the most release release of CATH-Plus | 
 +| cath-b-s35-newest.gz | List the latest domain boundaries and sequence family (C.A.T.H.S) annotations for all non-redundant sequence representatives |  
 + 
 +===== CATH-Plus (full release) ===== 
 + 
 +ftp://orengoftp.biochem.ucl.ac.uk/cath/releases/latest-release/ 
 + 
 +For information on the statistics for specific releases, see [[../release_notes|release notes]]. 
 + 
 +==== CATH classification data ==== 
 + 
 +ftp://orengoftp.biochem.ucl.ac.uk/cath/releases/latest-release/cath-classification-data/ 
 + 
 +^ File name ^ Description ^ 
 +| cath-chain-list-<version>.txt          | Lists all of the PDB chain IDs in CATH, whether they are chopped into domains or not. | 
 +| cath-domain-boundaries-*-<version>.txt | Description of domain and segment boundaries for domains classified into CATH. | 
 +| cath-domain-description-file-<version>.txt | Description of each protein domain in CATH | 
 +| cath-domain-list-<S35%%%|%%S60%%|%%S95%%|%%S100%%|%%all>-<version>.txt | Lists of domains classified into CATH | 
 +| cath-domain-pdb-*-<version>.txt | Description of each domain PDB classified into CATH | 
 +| cath-names-<version>.txt             |Name description of each node in the CATH hierarchy, along with an example domain | 
 +| cath-superfamily-list-<version>.txt  | List of all the superfamilies in the CATH hierarchy | 
 +| cath-unclassified-list-<version>.txt | List of all unclassified protein chains and domains that are still being processed | 
 + 
 +==== Non-redundant data sets ==== 
 + 
 +ftp://orengoftp.biochem.ucl.ac.uk/cath/releases/latest-release/non-redundant-data-sets/ 
 + 
 +^ File name ^ Description ^ 
 +| cath-dataset-nonredundant-S[20%%|%%40].atom.fa | The ATOM sequences of the domains in the dataset (which only contain residues that have ATOM records in the PDB file) | 
 +| cath-dataset-nonredundant-S[20%%|%%40].fa | The sequences of the domains in the dataset | 
 +| cath-dataset-nonredundant-S[20%%|%%40].list | A list of the domains in the dataset; one domain ID per line | 
 +| cath-dataset-nonredundant-S[20%%|%%40].pdb.tgz | (A gzipped tar file containing) the PDB files of the domains in the data set | 
 + 
 +==== Sequence data ==== 
 + 
 +ftp://orengoftp.biochem.ucl.ac.uk/cath/releases/latest-release/sequence-data/ 
 + 
 +^ File name ^ Description ^ 
 +| cath-domain-seqs-*-<version>.fa | Sequences for each CATH domain | 
 +| cath-S35-<version>-hmm3.lib.gz  | HMMs for each CATH representative domain from the sequence clusters at 35% sequence identity | 
 +| funfam-hmm3-<version>.lib.gz    | HMMs for each functional family (FunFam) | 
 +| cath-superfamily-seqs-<superfamily>-<version>.fa | Sequences for each CATH superfamily in FASTA format |
  
-^ Type         ^ Description                ^ 
-| [[CathDomainPdb]]  | Library of chopped PDB files for representative CATH domains | 
-| CathCathedral library  | Library of domain secondary structure graphs for CATHEDRAL for representative CATH domains | 
-| CathHmm       | HMM library file for CATH domains  | 
-| CathHmm (+unclassified) | HMM library file for CATH domains (including those that are waiting to be classified)  | 
-| [[CathDomainDescriptionFile]]  | Full description of CATH domains | 
-| [[CathDomall]]  | Domain boundaries for each PDB Chain in "domall" format  | 
-| CathUnclassifiedList  | List of CATH domains that are waiting to be assigned  | 
-| Chains  | List of PDB chains in CATH  | 
-| [[glossary:atom | Domain Sequences (ATOM) ]]  |FASTA sequence database for all CATH domains (based on ATOM records in PDB) | 
-|[[glossary:combs | Domain Sequences (COMBS) ]]  |FASTA sequence database for all CATH domains (based on COMBS sequence data)  |  
-| [[CathDomainList]]  |List of assigned CATH domains  | 
-| [[CathNames]]  |List of manually assigned names of CATH classification nodes  | 
-|Representative Domain Sequences (ATOM)  |FASTA sequence database for CATH domains (clustered at different levels of sequence identity)  | 
-|Representative Domain Sequences (COMBS)  |FASTA sequence database for CATH domains (clustered at different levels of sequence identity)  | 
-|Representatives  |List of CATH representative domains (representing clusters at different levels of sequence identity)  | 
  
data/index.1415369421.txt.gz · Last modified: by sillitoe

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