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data:cathdomaindescriptionfile [2008/09/16 07:27] garner |
data:cathdomaindescriptionfile [2014/11/07 14:56] (current) sillitoe |
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| ===== Cath Domain and Segment Naming Conventions ===== | ===== Cath Domain and Segment Naming Conventions ===== | ||
| - | Cath domain names are described by 7 characters (e.g. 1abcA01). | + | ==== CATH Domain Names ==== |
| - | ^ Characters ^ Description ^ | + | The domain names have seven characters (e.g. 1oaiA00). |
| - | | 1-4 | PDB Code | | + | |
| - | | 5 | Chain Character. \\ From the chain field of the PDB file. \\ Zero ('0') indicates that the PDB file has no chain field. | | + | |
| - | | 6-7 | Domain Number \\ Sequentially assigned domain number, 01, 02, 03 etc. \\ Zero ('00') indicates that the domain is a whole PDB chain. | | + | |
| - | NB: Before CATH v3.0.0 the domain identifier only contained 6 characters as the domain number was a single digit. This was changed due to some chains containing more than 10 domains (although this is very rare). | + | <code> |
| + | CHARACTERS 1-4: PDB Code | ||
| + | The first 4 characters determine the PDB code e.g. 1oai | ||
| + | |||
| + | CHARACTER 5: Chain Character | ||
| + | This determines which PDB chain is represented. | ||
| + | Chain characters of zero ('0') indicate that the PDB file has no chain field. | ||
| + | |||
| + | CHARACTER 6-7: Domain Number | ||
| + | The domain number is a 2-figure, zero-padded number (e.g. '01', '02' ... '10', '11', '12'). Where the domain number is a double ZERO ('00') this indicates that the domain is a whole PDB chain with no domain chopping. | ||
| + | </code> | ||
| + | |||
| + | ==== CATH Segment Names ==== | ||
| - | Cath segments (continuous regions of sequence within a domain) are described | + | CATH segments (continuous regions of sequence within a domain) are described |
| adding colon separated numbers to the end of the domain name. | adding colon separated numbers to the end of the domain name. | ||
| + | |||
| The first number is the sequential number of the segment. | The first number is the sequential number of the segment. | ||
| + | |||
| The second number is the total number of segments in this domain. | The second number is the total number of segments in this domain. | ||
| <code> | <code> | ||
| - | 1abc01:1:2 | + | 1abcA01:1:2 |
| - | xxxxxxooooo | + | xxxxxxxooooo |
| x = standard CATH six character domain name | x = standard CATH six character domain name | ||
| o = segment information :ThisSegment:TotalSegments | o = segment information :ThisSegment:TotalSegments | ||
| </code> | </code> | ||
| + | |||
