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| - | ====== CATH Data ====== | + | ====== CATH Data Downloads ====== |
| - | This page provides links to CATH data files from each externally available release of the CATH database. | + | 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]]. |
| - | Alternatively, you can browse all the release files here: | + | See [[:index#cath_releases|CATH Releases]] for more information on CATH and CATH-Plus. |
| - | [[http://release.cathdb.info]] | + | ===== CATH (daily snapshot) ===== |
| - | You can also look at the [[../release_notes|release notes]] for more information on what happened in each release. | + | ftp://orengoftp.biochem.ucl.ac.uk/cath/releases/daily-release/newest/ |
| - | ===== Page Notes ===== | + | ^ 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 | | ||
| - | * //08-09-2008// Added links to the descriptions of file formats | + | ===== CATH-Plus (full release) ===== |
| - | * //03-09-2008// Added links to the HMM libraries and CATH Domain PDB libraries | + | ftp://orengoftp.biochem.ucl.ac.uk/cath/releases/latest-release/ |
| - | * //19-08-2008// Added links to the CDDF (CathDomainDescriptionFiles) | + | For information on the statistics for specific releases, see [[../release_notes|release notes]]. |
| - | + | ||
| - | * //22-05-2009// Ollie: Added links to Cathedral library file for v3.2 and v3.1. | + | |
| - | ===== CATH Releases ===== | + | ==== CATH classification data ==== |
| + | ftp://orengoftp.biochem.ucl.ac.uk/cath/releases/latest-release/cath-classification-data/ | ||
| - | ==== Version v3.4 ==== | + | ^ 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 ==== | ||
| - | ^ Type ^ Description ^ Download (right-click and "Save as...") ^ | + | ftp://orengoftp.biochem.ucl.ac.uk/cath/releases/latest-release/non-redundant-data-sets/ |
| - | | [[CathDomainPdb]] | Library of chopped PDB files for representative CATH domains | [[http://release.cathdb.info/v3.4.0/CathDomainPdb.S35.v3_4_0.tgz | CathDomainPdb.S35.tgz]] (220 M) | | + | |
| - | | CathCathedral library | Library of domain secondary structure graphs for CATHEDRAL for representative CATH domains | [[http://release.cathdb.info/v3.4.0/Class1-4.s35.cathedral.library | Class1-4.s35.cathedral.library]] (69 M) | | + | |
| - | |CathHmm | HMM library file for CATH domains | [[http://release.cathdb.info/v3.4.0/hmmer.lib.gz|hmmer.lib.gz]] (102 M) | | + | |
| - | |CathHmm (+unclassified) | HMM library file for CATH domains (including those that are waiting to be classified) | [[http://release.cathdb.info/v3.4.0/hmmer.includingunclassifieddomains.lib.gz|hmmer.includingunclassifieddomains.lib.gz]] (131 M) | | + | |
| - | | [[CathDomainDescriptionFile]] |Full description of CATH domains | [[http://release.cathdb.info/v3.4.0/CathDomainDescriptionFile.v3.4.0.gz|CDDF]] (8.7 M) \\ | | + | |
| - | | [[CathDomall]] |Domain boundaries for each PDB Chain in "domall" format | [[http://release.cathdb.info/v3.4.0/CathDomall|CathDomall]] (5.6 M) \\ | | + | |
| - | |CathUnclassifiedList |List of CATH domains that are waiting to be assigned | [[http://release.cathdb.info/v3.4.0/CathUnclassifiedList|CathUnclassifiedList]] (1.3 M) \\ | | + | |
| - | |Chains |List of PDB chains in CATH | [[http://release.cathdb.info/v3.4.0/CathChainList|CathChainList]] (8.5 M) \\ | | + | |
| - | |[[glossary:atom | Domain Sequences (ATOM) ]] |FASTA sequence database for all CATH domains (based on ATOM records in PDB) | [[http://release.cathdb.info/v3.4.0/CathDomainSeqs.ATOM|CathDomainSeqs.ATOM]] (22 M) \\ | | + | |
| - | |[[glossary:combs | Domain Sequences (COMBS) ]] |FASTA sequence database for all CATH domains (based on COMBS sequence data) | [[http://release.cathdb.info/v3.4.0/CathDomainSeqs.COMBS|CathDomainSeqs.COMBS]] (22 M) \\ | | + | |
| - | | [[CathDomainList]] |List of assigned CATH domains | [[http://release.cathdb.info/v3.4.0/CathDomainList|CathDomainList]] (9.1 M) \\ | | + | |
| - | | [[CathNames]] |List of manually assigned names of CATH classification nodes | [[http://release.cathdb.info/v3.4.0/CathNames|CathNames]] (192 K) \\ | | + | |
| - | |Representative Domain Sequences (ATOM) |FASTA sequence database for CATH domains (clustered at different levels of sequence identity) | [[http://release.cathdb.info/v3.4.0/CathDomainSeqs.S100.ATOM|CathDomainSeqs.S100.ATOM]] (6.1 M) \\ [[http://release.cathdb.info/v3.4.0/CathDomainSeqs.S35.ATOM|CathDomainSeqs.S35.ATOM]] (1.6 M) \\ [[http://release.cathdb.info/v3.4.0/CathDomainSeqs.S60.ATOM|CathDomainSeqs.S60.ATOM]] (2.2 M) \\ [[http://release.cathdb.info/v3.4.0/CathDomainSeqs.S95.ATOM|CathDomainSeqs.S95.ATOM]] (2.9 M) \\ | | + | |
| - | |Representative Domain Sequences (COMBS) |FASTA sequence database for CATH domains (clustered at different levels of sequence identity) | [[http://release.cathdb.info/v3.4.0/CathDomainSeqs.S100.COMBS|CathDomainSeqs.S100.COMBS]] (6.2 M) \\ [[http://release.cathdb.info/v3.4.0/CathDomainSeqs.S35.COMBS|CathDomainSeqs.S35.COMBS]] (1.6 M) \\ [[http://release.cathdb.info/v3.4.0/CathDomainSeqs.S60.COMBS|CathDomainSeqs.S60.COMBS]] (2.3 M) \\ [[http://release.cathdb.info/v3.4.0/CathDomainSeqs.S95.COMBS|CathDomainSeqs.S95.COMBS]] (3.0 M) \\ | | + | |
| - | |Representatives |List of CATH representative domains (representing clusters at different levels of sequence identity) | [[http://release.cathdb.info/v3.4.0/CathDomainList.S100|CathDomainList.S100]] (2.6 M) \\ [[http://release.cathdb.info/v3.4.0/CathDomainList.S35|CathDomainList.S35]] (0.7 M) \\ [[http://release.cathdb.info/v3.4.0/CathDomainList.S60|CathDomainList.S60]] (1.0 M) \\ [[http://release.cathdb.info/v3.4.0/CathDomainList.S95|CathDomainList.S95]] (1.4 M) \\ | | + | |
| + | ^ 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 | | ||
| - | ==== Version v3.3 ==== | + | ==== Sequence data ==== |
| + | ftp://orengoftp.biochem.ucl.ac.uk/cath/releases/latest-release/sequence-data/ | ||
| - | ^ Type ^ Description ^ Download (right-click and "Save as...") ^ | + | ^ File name ^ Description ^ |
| - | | [[CathDomainPdb]] | Library of chopped PDB files for representative CATH domains | [[http://release.cathdb.info/v3.3.0/CathDomainPdb.S35.v3_3_0.tgz | CathDomainPdb.S35.tgz]] (220 M) | | + | | cath-domain-seqs-*-<version>.fa | Sequences for each CATH domain | |
| - | | CathCathedral library | Library of domain secondary structure graphs for CATHEDRAL for representative CATH domains | [[http://release.cathdb.info/v3.3.0/Class1-4.s35.cathedral.library | Class1-4.s35.cathedral.library]] (69 M) | | + | | cath-S35-<version>-hmm3.lib.gz | HMMs for each CATH representative domain from the sequence clusters at 35% sequence identity | |
| - | |CathHmm | HMM library file for CATH domains | [[http://release.cathdb.info/v3.3.0/hmmer.lib.gz|hmmer.lib.gz]] (102 M) | | + | | funfam-hmm3-<version>.lib.gz | HMMs for each functional family (FunFam) | |
| - | |CathHmm (+unclassified) | HMM library file for CATH domains (including those that are waiting to be classified) | [[http://release.cathdb.info/v3.3.0/hmmer.includingunclassifieddomains.lib.gz|hmmer.includingunclassifieddomains.lib.gz]] (131 M) | | + | | cath-superfamily-seqs-<superfamily>-<version>;.fa | Sequences for each CATH superfamily in FASTA format | |
| - | | [[CathDomainDescriptionFile]] |Full description of CATH domains | [[http://release.cathdb.info/v3.3.0/CathDomainDescriptionFile.v3.3.0.gz|CDDF]] (8.7 M) \\ | | + | |
| - | | [[CathDomall]] |Domain boundaries for each PDB Chain in "domall" format | [[http://release.cathdb.info/v3.3.0/CathDomall|CathDomall]] (5.6 M) \\ | | + | |
| - | |CathUnclassifiedList |List of CATH domains that are waiting to be assigned | [[http://release.cathdb.info/v3.3.0/CathUnclassifiedList|CathUnclassifiedList]] (1.3 M) \\ | | + | |
| - | |Chains |List of PDB chains in CATH | [[http://release.cathdb.info/v3.3.0/CathChainList|CathChainList]] (8.5 M) \\ | | + | |
| - | |[[glossary:atom | Domain Sequences (ATOM) ]] |FASTA sequence database for all CATH domains (based on ATOM records in PDB) | [[http://release.cathdb.info/v3.3.0/CathDomainSeqs.ATOM|CathDomainSeqs.ATOM]] (22 M) \\ | | + | |
| - | |[[glossary:combs | Domain Sequences (COMBS) ]] |FASTA sequence database for all CATH domains (based on COMBS sequence data) | [[http://release.cathdb.info/v3.3.0/CathDomainSeqs.COMBS|CathDomainSeqs.COMBS]] (22 M) \\ | | + | |
| - | | [[CathDomainList]] |List of assigned CATH domains | [[http://release.cathdb.info/v3.3.0/CathDomainList|CathDomainList]] (9.1 M) \\ | | + | |
| - | | [[CathNames]] |List of manually assigned names of CATH classification nodes | [[http://release.cathdb.info/v3.3.0/CathNames|CathNames]] (192 K) \\ | | + | |
| - | |Representative Domain Sequences (ATOM) |FASTA sequence database for CATH domains (clustered at different levels of sequence identity) | [[http://release.cathdb.info/v3.3.0/CathDomainSeqs.S100.ATOM|CathDomainSeqs.S100.ATOM]] (6.1 M) \\ [[http://release.cathdb.info/v3.3.0/CathDomainSeqs.S35.ATOM|CathDomainSeqs.S35.ATOM]] (1.6 M) \\ [[http://release.cathdb.info/v3.3.0/CathDomainSeqs.S60.ATOM|CathDomainSeqs.S60.ATOM]] (2.2 M) \\ [[http://release.cathdb.info/v3.3.0/CathDomainSeqs.S95.ATOM|CathDomainSeqs.S95.ATOM]] (2.9 M) \\ | | + | |
| - | |Representative Domain Sequences (COMBS) |FASTA sequence database for CATH domains (clustered at different levels of sequence identity) | [[http://release.cathdb.info/v3.3.0/CathDomainSeqs.S100.COMBS|CathDomainSeqs.S100.COMBS]] (6.2 M) \\ [[http://release.cathdb.info/v3.3.0/CathDomainSeqs.S35.COMBS|CathDomainSeqs.S35.COMBS]] (1.6 M) \\ [[http://release.cathdb.info/v3.3.0/CathDomainSeqs.S60.COMBS|CathDomainSeqs.S60.COMBS]] (2.3 M) \\ [[http://release.cathdb.info/v3.3.0/CathDomainSeqs.S95.COMBS|CathDomainSeqs.S95.COMBS]] (3.0 M) \\ | | + | |
| - | |Representatives |List of CATH representative domains (representing clusters at different levels of sequence identity) | [[http://release.cathdb.info/v3.3.0/CathDomainList.S100|CathDomainList.S100]] (2.6 M) \\ [[http://release.cathdb.info/v3.3.0/CathDomainList.S35|CathDomainList.S35]] (0.7 M) \\ [[http://release.cathdb.info/v3.3.0/CathDomainList.S60|CathDomainList.S60]] (1.0 M) \\ [[http://release.cathdb.info/v3.3.0/CathDomainList.S95|CathDomainList.S95]] (1.4 M) \\ | | + | |
| - | ==== Version v3.2 ==== | ||
| - | ^ Type ^ Description ^ Download (right-click and "Save as...") ^ | ||
| - | | [[CathDomainPdb]] | Library of chopped PDB files for representative CATH domains | [[http://release.cathdb.info/v3.2.0/CathDomainPdb.S35.v3.2.0.tgz | CathDomainPdb.S35.tgz]] (206 M) \\ [[http://release.cathdb.info/v3.2.0/CathDomainPdb.S60.v3.2.0.tgz| CathDomainPdb.S60.tgz]] (291 M) | | ||
| - | | CathCathedral library | Library of domain secondary structure graphs for CATHEDRAL for representative CATH domains | [[http://release.cathdb.info/v3.2.0/Class1-4.s35.cathedral.library | Class1-4.s35.cathedral.library]] (63 M) | | ||
| - | |CathHmm | HMM library file for CATH domains | [[http://release.cathdb.info/v3.2.0/hmmer.lib.gz|hmmer.lib.gz]] (91 M) | | ||
| - | |CathHmm (+unclassified) | HMM library file for CATH domains (including those that are waiting to be classified) | [[http://release.cathdb.info/v3.2.0/hmmer.includingunclassifieddomains.lib.gz|hmmer.includingunclassifieddomains.lib.gz]] (118 M) | | ||
| - | | [[CathDomainDescriptionFile]] |Full description of CATH domains | [[http://release.cathdb.info/v3.2.0/CathDomainDescriptionFile.gz|CDDF]] (7.9 M) \\ | | ||
| - | | [[CathDomall]] |Domain boundaries for each PDB Chain in "domall" format | [[http://release.cathdb.info/v3.2.0/CathDomall|CathDomall]] (5.11 M) \\ | | ||
| - | |CathUnclassifiedList |List of CATH domains that are waiting to be assigned | [[http://release.cathdb.info/v3.2.0/CathUnclassifiedList|CathUnclassifiedList]] (1.09 M) \\ | | ||
| - | |Chains |List of PDB chains in CATH | [[http://release.cathdb.info/v3.2.0/CathChainList|CathChainList]] (7.88 M) \\ | | ||
| - | |[[glossary:atom | Domain Sequences (ATOM) ]] |FASTA sequence database for all CATH domains (based on ATOM records in PDB) | [[http://release.cathdb.info/v3.2.0/CathDomainSeqs.ATOM|CathDomainSeqs.ATOM]] (19.92 M) \\ | | ||
| - | |[[glossary:combs | Domain Sequences (COMBS) ]] |FASTA sequence database for all CATH domains (based on COMBS sequence data) | [[http://release.cathdb.info/v3.2.0/CathDomainSeqs.COMBS|CathDomainSeqs.COMBS]] (20.33 M) \\ | | ||
| - | | [[CathDomainList]] |List of assigned CATH domains | [[http://release.cathdb.info/v3.2.0/CathDomainList|CathDomainList]] (8.47 M) \\ | | ||
| - | | [[CathNames]] |List of manually assigned names of CATH classification nodes | [[http://release.cathdb.info/v3.2.0/CathNames|CathNames]] (177.48 K) \\ | | ||
| - | |Representative Domain Sequences (ATOM) |FASTA sequence database for CATH domains (clustered at different levels of sequence identity) | [[http://release.cathdb.info/v3.2.0/CathDomainSeqs.S100.ATOM|CathDomainSeqs.S100.ATOM]] (5.55 M) \\ [[http://release.cathdb.info/v3.2.0/CathDomainSeqs.S35.ATOM|CathDomainSeqs.S35.ATOM]] (1.44 M) \\ [[http://release.cathdb.info/v3.2.0/CathDomainSeqs.S60.ATOM|CathDomainSeqs.S60.ATOM]] (2.03 M) \\ [[http://release.cathdb.info/v3.2.0/CathDomainSeqs.S95.ATOM|CathDomainSeqs.S95.ATOM]] (2.69 M) \\ | | ||
| - | |Representative Domain Sequences (COMBS) |FASTA sequence database for CATH domains (clustered at different levels of sequence identity) | [[http://release.cathdb.info/v3.2.0/CathDomainSeqs.S100.COMBS|CathDomainSeqs.S100.COMBS]] (5.70 M) \\ [[http://release.cathdb.info/v3.2.0/CathDomainSeqs.S35.COMBS|CathDomainSeqs.S35.COMBS]] (1.48 M) \\ [[http://release.cathdb.info/v3.2.0/CathDomainSeqs.S60.COMBS|CathDomainSeqs.S60.COMBS]] (2.09 M) \\ [[http://release.cathdb.info/v3.2.0/CathDomainSeqs.S95.COMBS|CathDomainSeqs.S95.COMBS]] (2.76 M) \\ | | ||
| - | |Representatives |List of CATH representative domains (representing clusters at different levels of sequence identity) | [[http://release.cathdb.info/v3.2.0/CathDomainList.S100|CathDomainList.S100]] (2.31 M) \\ [[http://release.cathdb.info/v3.2.0/CathDomainList.S35|CathDomainList.S35]] (658.02 K) \\ [[http://release.cathdb.info/v3.2.0/CathDomainList.S60|CathDomainList.S60]] (911.06 K) \\ [[http://release.cathdb.info/v3.2.0/CathDomainList.S95|CathDomainList.S95]] (1.22 M) \\ | | ||
| - | |||
| - | ==== Version v3.1 ==== | ||
| - | |||
| - | ^ Type ^ Description ^ Download (right-click and "Save as...") ^ | ||
| - | | CathCathedral library | Library of domain secondary structure graphs for CATHEDRAL for representative CATH domains | [[http://release.cathdb.info/v3.1.0/Class1-4.s35.cathedral.library | Class1-4.s35.cathedral.library]] (63 M) | | ||
| - | | StructuralOverlap | A 'structural overlap matrix' giving information for all the structural overlaps between different folds in CATH | [[http://release.cathdb.info/v3.1.0/structural_overlap_matrix.dat|structural_overlap_matrix.dat]] | | ||
| - | | StructuralDiversity | File of CATH superfamilies and number of structurally similar groups (SSGs) in those families. The number of SSG's are a measure of structural diversity. | [[http://release.cathdb.info/v3.1.0/structural_diversity_matrix.dat|structural_diversity_matrix.dat]] | | ||
| - | | ArchitectureFunctionPopulation | File giving functional information and population statistics for CATH architectures | [[http://release.cathdb.info/v3.1.0/architecture_goterms.dat|architecture_goterms.dat]] | | ||
| - | | [[CathDomainPdb]] | Library of chopped PDB files for representative CATH domains | [[http://release.cathdb.info/v3.1.0/CathDomainPdb.S35.v3.1.0.tgz | CathDomainPdb.S35.tgz]] (183 M) \\ [[http://release.cathdb.info/v3.1.0/CathDomainPdb.S60.v3.1.0.tgz| CathDomainPdb.S60.tgz]] (245 M) | | ||
| - | |CathHmm | HMM library file for CATH domains | [[http://release.cathdb.info/v3.1.0/hmmer.lib.gz|hmmer.lib.gz]] (80 M) | | ||
| - | |CathHmm (+unclassified) | HMM library file for CATH domains (including those that are waiting to be classified) | [[http://release.cathdb.info/v3.1.0/hmmer.includingunclassifieddomains.lib.gz|hmmer.includingunclassifieddomains.lib.gz]] (87 M) | | ||
| - | | [[CathDomainDescriptionFile]] |Full description of CATH domains | [[http://release.cathdb.info/v3.1.0/CathDomainDescriptionFile|CDDF]] (103 M) \\ | | ||
| - | | [[CathDomall]] |Domain boundaries for each PDB Chain in "domall" format | [[http://release.cathdb.info/v3.1.0/CathDomall|CathDomall]] (3.87 M) \\ | | ||
| - | |CathUnclassifiedList |List of CATH domains that are waiting to be assigned | [[http://release.cathdb.info/v3.1.0/CathUnclassifiedList|CathUnclassifiedList]] (230.22 K) \\ | | ||
| - | |Chains |List of PDB chains in CATH | [[http://release.cathdb.info/v3.1.0/CathChainList|CathChainList]] (6.21 M) \\ | | ||
| - | |[[glossary:atom | Domain Sequences (ATOM) ]] |FASTA sequence database for all CATH domains (based on ATOM records in PDB) | [[http://release.cathdb.info/v3.1.0/CathDomainSeqs.ATOM|CathDomainSeqs.ATOM]] (16.31 M) \\ | | ||
| - | |[[glossary:combs | Domain Sequences (COMBS) ]] |FASTA sequence database for all CATH domains (based on COMBS sequence data) | [[http://release.cathdb.info/v3.1.0/CathDomainSeqs.COMBS|CathDomainSeqs.COMBS]] (16.62 M) \\ | | ||
| - | | [[CathDomainList]] |List of assigned CATH domains | [[http://release.cathdb.info/v3.1.0/CathDomainList|CathDomainList]] (6.96 M) \\ | | ||
| - | | [[CathNames]] |List of manually assigned names of CATH classification nodes | [[http://release.cathdb.info/v3.1.0/CathNames|CathNames]] (171.91 K) \\ | | ||
| - | |Representative Domain Sequences (ATOM) |FASTA sequence database for CATH domains (clustered at different levels of sequence identity) | [[http://release.cathdb.info/v3.1.0/CathDomainSeqs.S100.ATOM|CathDomainSeqs.S100.ATOM]] (4.53 M) \\ [[http://release.cathdb.info/v3.1.0/CathDomainSeqs.S35.ATOM|CathDomainSeqs.S35.ATOM]] (1.27 M) \\ [[http://release.cathdb.info/v3.1.0/CathDomainSeqs.S60.ATOM|CathDomainSeqs.S60.ATOM]] (1.71 M) \\ [[http://release.cathdb.info/v3.1.0/CathDomainSeqs.S95.ATOM|CathDomainSeqs.S95.ATOM]] (2.25 M) \\ | | ||
| - | |Representative Domain Sequences (COMBS) |FASTA sequence database for CATH domains (clustered at different levels of sequence identity) | [[http://release.cathdb.info/v3.1.0/CathDomainSeqs.S100.COMBS|CathDomainSeqs.S100.COMBS]] (4.64 M) \\ [[http://release.cathdb.info/v3.1.0/CathDomainSeqs.S35.COMBS|CathDomainSeqs.S35.COMBS]] (1.30 M) \\ [[http://release.cathdb.info/v3.1.0/CathDomainSeqs.S60.COMBS|CathDomainSeqs.S60.COMBS]] (1.76 M) \\ [[http://release.cathdb.info/v3.1.0/CathDomainSeqs.S95.COMBS|CathDomainSeqs.S95.COMBS]] (2.30 M) \\ | | ||
| - | |Representatives |List of CATH representative domains (representing clusters at different levels of sequence identity) | [[http://release.cathdb.info/v3.1.0/CathDomainList.S100|CathDomainList.S100]] (1.89 M) \\ [[http://release.cathdb.info/v3.1.0/CathDomainList.S35|CathDomainList.S35]] (578.22 K) \\ [[http://release.cathdb.info/v3.1.0/CathDomainList.S60|CathDomainList.S60]] (768.86 K) \\ [[http://release.cathdb.info/v3.1.0/CathDomainList.S95|CathDomainList.S95]] (1.02 M) \\ | | ||
| - | |||
| - | ==== Version v3.0 ==== | ||
| - | |||
| - | ^ Type ^ Description ^ Download (right-click and "Save as...") ^ | ||
| - | | [[CathDomainPdb]] | Library of chopped PDB files for representative CATH domains | [[http://release.cathdb.info/v3.0.0/CathDomainPdb.S35.v3.0.0.tgz | CathDomainPdb.S35.tgz]] (183 M) \\ [[http://release.cathdb.info/v3.0.0/CathDomainPdb.S60.v3.0.0.tgz| CathDomainPdb.S60.tgz]] (237 M) | | ||
| - | |CathHmm | HMM library file for CATH domains | [[http://release.cathdb.info/v3.0.0/hmmer.lib.gz|hmmer.lib.gz]] (79 M) | | ||
| - | | [[CathDomainDescriptionFile]] |Full description of CATH domains | [[http://release.cathdb.info/v3.0.0/CathDomainDescriptionFile|CDDF]] (91 M) \\ | | ||
| - | | [[CathDomall]] |Domain boundaries for each PDB Chain in "domall" format | [[http://release.cathdb.info/v3.0.0/CathDomall|CathDomall]] (3.52 M) \\ | | ||
| - | |CathUnclassifiedList |List of CATH domains that are waiting to be assigned | [[http://release.cathdb.info/v3.0.0/CathUnclassifiedList|CathUnclassifiedList]] (138.45 K) \\ | | ||
| - | |Chains |List of PDB chains in CATH | [[http://release.cathdb.info/v3.0.0/CathChainList|CathChainList]] (5.30 M) \\ | | ||
| - | |[[glossary:atom | Domain Sequences (ATOM) ]] |FASTA sequence database for all CATH domains (based on ATOM records in PDB) | [[http://release.cathdb.info/v3.0.0/CathDomainSeqs.ATOM|CathDomainSeqs.ATOM]] (14.93 M) \\ | | ||
| - | |[[glossary:combs | Domain Sequences (COMBS) ]] |FASTA sequence database for all CATH domains (based on COMBS sequence data) | [[http://release.cathdb.info/v3.0.0/CathDomainSeqs.COMBS|CathDomainSeqs.COMBS]] (15.20 M) \\ | | ||
| - | | [[CathDomainList]] |List of assigned CATH domains | [[http://release.cathdb.info/v3.0.0/CathDomainList|CathDomainList]] (6.39 M) \\ | | ||
| - | | [[CathNames]] |List of manually assigned names of CATH classification nodes | [[http://release.cathdb.info/v3.0.0/CathNames|CathNames]] (176.46 K) \\ | | ||
| - | |Representative Domain Sequences (ATOM) |FASTA sequence database for CATH domains (clustered at different levels of sequence identity) | [[http://release.cathdb.info/v3.0.0/CathDomainSeqs.S35.ATOM|CathDomainSeqs.S35.ATOM]] (1.28 M) \\ [[http://release.cathdb.info/v3.0.0/CathDomainSeqs.S60.ATOM|CathDomainSeqs.S60.ATOM]] (1.65 M) \\ [[http://release.cathdb.info/v3.0.0/CathDomainSeqs.S95.ATOM|CathDomainSeqs.S95.ATOM]] (2.12 M) \\ | | ||
| - | |Representative Domain Sequences (COMBS) |FASTA sequence database for CATH domains (clustered at different levels of sequence identity) | [[http://release.cathdb.info/v3.0.0/CathDomainSeqs.S35.COMBS|CathDomainSeqs.S35.COMBS]] (1.31 M) \\ [[http://release.cathdb.info/v3.0.0/CathDomainSeqs.S60.COMBS|CathDomainSeqs.S60.COMBS]] (1.69 M) \\ [[http://release.cathdb.info/v3.0.0/CathDomainSeqs.S95.COMBS|CathDomainSeqs.S95.COMBS]] (2.17 M) \\ | | ||
| - | |Representatives |List of CATH representative domains (representing clusters at different levels of sequence identity) | [[http://release.cathdb.info/v3.0.0/CathDomainList.S100|CathDomainList.S100]] (1.77 M) \\ [[http://release.cathdb.info/v3.0.0/CathDomainList.S35|CathDomainList.S35]] (581.69 K) \\ [[http://release.cathdb.info/v3.0.0/CathDomainList.S60|CathDomainList.S60]] (743.07 K) \\ [[http://release.cathdb.info/v3.0.0/CathDomainList.S95|CathDomainList.S95]] (966.06 K) \\ | | ||
| - | |||
| - | ==== Version v2.6 ==== | ||
| - | |||
| - | ^ Type ^ Description ^ Download (right-click and "Save as...") ^ | ||
| - | | [[CathDomainDescriptionFile]] |Full description of CATH domains | [[http://release.cathdb.info/v2.6.0/CathDomainDescriptionFile|CDDF]] (67 M) \\ | | ||
| - | | [[CathDomall]] |Domain boundaries for each PDB Chain in "domall" format | [[http://release.cathdb.info/v2.6.0/CathDomall|CathDomall]] (1.83 M) \\ | | ||
| - | |CathUnclassifiedList |List of CATH domains that are waiting to be assigned | [[http://release.cathdb.info/v2.6.0/CathUnclassifiedList|CathUnclassifiedList]] (571.26 K) \\ | | ||
| - | |Chains |List of PDB chains in CATH | [[http://release.cathdb.info/v2.6.0/CathChainList|CathChainList]] (1.01 M) \\ | | ||
| - | |[[glossary:atom | Domain Sequences (ATOM) ]] |FASTA sequence database for all CATH domains (based on ATOM records in PDB) | [[http://release.cathdb.info/v2.6.0/CathDomainSeqs.ATOM|CathDomainSeqs.ATOM]] (11.66 M) \\ | | ||
| - | |[[glossary:combs | Domain Sequences (COMBS) ]] |FASTA sequence database for all CATH domains (based on COMBS sequence data) | [[http://release.cathdb.info/v2.6.0/CathDomainSeqs.COMBS|CathDomainSeqs.COMBS]] (11.83 M) \\ | | ||
| - | | [[CathDomainList]] |List of assigned CATH domains | [[http://release.cathdb.info/v2.6.0/CathDomainList|CathDomainList]] (4.03 M) \\ | | ||
| - | | [[CathNames]] |List of manually assigned names of CATH classification nodes | [[http://release.cathdb.info/v2.6.0/CathNames|CathNames]] (119.82 K) \\ | | ||
| - | |Representative Domain Sequences (ATOM) |FASTA sequence database for CATH domains (clustered at different levels of sequence identity) | [[http://release.cathdb.info/v2.6.0/CathDomainSeqs.S35.ATOM|CathDomainSeqs.S35.ATOM]] (981.27 K) \\ [[http://release.cathdb.info/v2.6.0/CathDomainSeqs.S95.ATOM|CathDomainSeqs.S95.ATOM]] (1.66 M) \\ | | ||
| - | |Representative Domain Sequences (COMBS) |FASTA sequence database for CATH domains (clustered at different levels of sequence identity) | [[http://release.cathdb.info/v2.6.0/CathDomainSeqs.S35.COMBS|CathDomainSeqs.S35.COMBS]] (1.00 M) \\ [[http://release.cathdb.info/v2.6.0/CathDomainSeqs.S95.COMBS|CathDomainSeqs.S95.COMBS]] (1.69 M) \\ | | ||
| - | |Representatives |List of CATH representative domains (representing clusters at different levels of sequence identity) | [[http://release.cathdb.info/v2.6.0/CathDomainList.S35|CathDomainList.S35]] (361.30 K) \\ [[http://release.cathdb.info/v2.6.0/CathDomainList.S95|CathDomainList.S95]] (611.79 K) \\ | | ||
| - | |||
| - | ==== Version v2.5 ==== | ||
| - | |||
| - | ^ Type ^ Description ^ Download (right-click and "Save as...") ^ | ||
| - | | [[CathDomall]] |Domain boundaries for each PDB Chain in "domall" format | [[http://release.cathdb.info/v2.5/CathDomall|CathDomall]] (1.04 M) \\ | | ||
| - | |[[glossary:atom | Domain Sequences (ATOM) ]] |FASTA sequence database for all CATH domains (based on ATOM records in PDB) | [[http://release.cathdb.info/v2.5/CathDomainSeqs.ATOM|CathDomainSeqs.ATOM]] (8.56 M) \\ | | ||
| - | | [[CathDomainList]] |List of assigned CATH domains | [[http://release.cathdb.info/v2.5/CathDomainList|CathDomainList]] (2.00 M) \\ | | ||
| - | | [[CathNames]] |List of manually assigned names of CATH classification nodes | [[http://release.cathdb.info/v2.5/CathNames|CathNames]] (105.70 K) \\ | | ||
| - | |Representatives |List of CATH representative domains (representing clusters at different levels of sequence identity) | [[http://release.cathdb.info/v2.5/CathDomainList.S35|CathDomainList.S35]] (187.16 K) \\ [[http://release.cathdb.info/v2.5/CathDomainList.S95|CathDomainList.S95]] (349.04 K) \\ | | ||
| - | |||
| - | ==== Version v2.4 ==== | ||
| - | |||
| - | ^ Type ^ Description ^ Download (right-click and "Save as...") ^ | ||
| - | | [[CathDomall]] |Domain boundaries for each PDB Chain in "domall" format | [[http://release.cathdb.info/v2.4/CathDomall|CathDomall]] (824.58 K) \\ | | ||
| - | |CathUnclassifiedList |List of CATH domains that are waiting to be assigned | [[http://release.cathdb.info/v2.4/CathUnclassifiedList|CathUnclassifiedList]] (101.81 K) \\ | | ||
| - | |Chains |List of PDB chains in CATH | [[http://release.cathdb.info/v2.4/CathChainList|CathChainList]] (368.83 K) \\ | | ||
| - | |[[glossary:atom | Domain Sequences (ATOM) ]] |FASTA sequence database for all CATH domains (based on ATOM records in PDB) | [[http://release.cathdb.info/v2.4/CathDomainSeqs.ATOM|CathDomainSeqs.ATOM]] (6.03 M) \\ | | ||
| - | | [[CathDomainList]] |List of assigned CATH domains | [[http://release.cathdb.info/v2.4/CathDomainList|CathDomainList]] (1.59 M) \\ | | ||
| - | | [[CathNames]] |List of manually assigned names of CATH classification nodes | [[http://release.cathdb.info/v2.4/CathNames|CathNames]] (67.11 K) \\ | | ||
| - | |Representatives |List of CATH representative domains (representing clusters at different levels of sequence identity) | [[http://release.cathdb.info/v2.4/CathDomainList.S35|CathDomainList.S35]] (152.30 K) \\ | | ||
| - | |||
| - | ==== Version v2.0 ==== | ||
| - | |||
| - | ^ Type ^ Description ^ Download (right-click and "Save as...") ^ | ||
| - | | [[CathDomall]] |Domain boundaries for each PDB Chain in "domall" format | [[http://release.cathdb.info/v2.0/CathDomall|CathDomall]] (633.35 K) \\ | | ||
| - | |Chains |List of PDB chains in CATH | [[http://release.cathdb.info/v2.0/CathChainList|CathChainList]] (308.35 K) \\ | | ||
| - | | [[CathDomainList]] |List of assigned CATH domains | [[http://release.cathdb.info/v2.0/CathDomainList|CathDomainList]] (1.27 M) \\ | | ||
| - | | [[CathNames]] |List of manually assigned names of CATH classification nodes | [[http://release.cathdb.info/v2.0/CathNames|CathNames]] (59.65 K) \\ | | ||
| - | |Representatives |List of CATH representative domains (representing clusters at different levels of sequence identity) | [[http://release.cathdb.info/v2.0/CathDomainList.S35|CathDomainList.S35]] (124.08 K) \\ | | ||
