HHsearch alignment for GI: 254780725 and conserved domain: cd04136

>cd04136 Rap_like Rap-like subfamily. The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.
Probab=91.36  E-value=1  Score=23.54  Aligned_cols=109  Identities=17%  Similarity=0.241  Sum_probs=66.9

Q ss_pred             CCCEEEECCCCCC--CHHHHHHHHHCCCCCCCCCC-CHHHHHHHHHHHHHHHHC-CCCCCCCEEEEECCCCCCCCHHHHH
Q ss_conf             2888997388888--98999998620125435787-768899999999999981-9876753899956589875200599
Q gi|254780725|r  274 IFPLVILDVPHVW--NSWTQEVLTLSDKVVITTSL-DLAGLRNSKNLIDVLKKL-RPADKPPYLVLNQVKTPKKPEISIS  349 (427)
Q Consensus       274 ~yd~VIiD~p~~~--~~~~~~~L~~AD~vviV~~p-~~~slr~a~~ll~~l~~~-~~~~~~~~iVlNr~~~~~~~~i~~~  349 (427)
T Consensus        48 ~~~l~iwDtaG~e~~~~~~~~y~~~a~~~ilvydvt~~~Sf~~l~~~~~~i~~~~~~~~~piilVGnK~Dl~~~r~v~~~  127 (163)
T cd04136          48 QCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSRE  127 (163)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCHHHHCCCCHH
T ss_conf             99998645765445556789883468769997048988999999999999998618888867876235472640789999


Q ss_pred             HHHHHHCCCEEEEECCCHHHHHHHHHCCCCEEEECCCC--HHHHHHHHHHHHH
Q ss_conf             99998489537990687999999884796189888999--8999999999998
Q gi|254780725|r  350 DFCAPLGITPSAIIPFDGAVFGMSANSGKMIHEVDPKS--AIANLLVDFSRVL  400 (427)
Q Consensus       350 ~~~~~lg~~~~~~IP~D~~~~~~A~~~G~pi~e~~p~s--~~a~~~~~La~~i  400 (427)
T Consensus       128 ----------------~~~--~~a~~~~~~~~E~SAk~~~nV~e~F~~l~~~i  162 (163)
T cd04136         128 ----------------EGQ--ALARQWGCPFYETSAKSKINVDEVFADLVRQI  162 (163)
T ss_pred             ----------------HHH--HHHHHCCCEEEEECCCCCCCHHHHHHHHHHHH
T ss_conf             ----------------999--99998499899974487805899999999963