TABLE 1.
Alignment scores of CPAF amino acid sequences from five different chlamydia and one parachlamydia species
| Serovar or isolate | Alignment score for a
|
|||||||||
|---|---|---|---|---|---|---|---|---|---|---|
|
C. trachomatis
|
C. muridarum
|
C. pneumoniae
|
C. psittaci
|
C. caviae
|
Parachlamydia sp.
|
|||||
| D | L2 | MoPn | CWL029 | AR39 | TW183 | J138 | 6BC | GPIC | UWE25 | |
| D | 100 | 99 | 82 | 46 | 46 | 46 | 46 | 54 | 54 | 30 |
| L2 | 100 | 82 | 46 | 46 | 46 | 46 | 54 | 54 | 30 | |
| MoPn | 100 | 46 | 46 | 46 | 46 | 54 | 54 | 32 | ||
| CWL029 | 100 | 99 | 99 | 99 | 54 | 54 | 31 | |||
| AR39 | 100 | 99 | 99 | 54 | 54 | 31 | ||||
| TW183 | 100 | 99 | 54 | 54 | 31 | |||||
| J138 | 100 | 54 | 54 | 31 | ||||||
| 6BC | 100 | 99 | 31 | |||||||
| GPIC | 100 | 31 | ||||||||
| UWE25 | 100 | |||||||||
Note that the CPAF sequences from C. trachomatis serovar D (accession, version number NP_220380.1, GI:15605594); C. muridarum MoPn (AAF39117.1, GI:7190287); C. pneumoniae CWL029 (NP_225210.1, GI:15618924), AR39 (NP_445376.1, GI:16752010), TW183 (AAP98983.1, GI:33236896), and J138 (NP_301071.1, GI:15836547); C. caviae GPIC (AAP05486.1, GI:29834851); and Parachlamydia sp. UWE25 (YP_007915, GI:46446550) were obtained from the NCBI Entrez protein database (http://www.ncbi.nlm.nih.gov/entrez/viewer/fcgi?db=protein). However, the C. trachomatis serovar L2 and C. psittaci 6BC CPAF sequences were determined in our own lab using primers derived from C. trachomatis serovar D and C. caviae GPIC, respectively. The derived amino acid sequences were analyzed with the ClustalW software at the website http://www.ebi.ac.uk/clustalw/. The alignment scores (percent identical amino acids) were assigned between the 10 CPAF amino acid sequences after pairwise alignment analyses with minimal gaps.