HHsearch alignment for GI: 254780787 and conserved domain: cd04124

>cd04124 RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b
Probab=99.20  E-value=1.4e-10  Score=90.29  Aligned_cols=147  Identities=19%  Similarity=0.205  Sum_probs=96.3

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHC-C-CCCCEECCCEEEEECCCCEEEEEECCCHHHHHHHHHHHHHCCCCEEEEEEC
Q ss_conf             89862368504467778864222100-1-231000121499951784388885166157899986664206805999983
Q gi|254780787|r  386 VTIMGHVDHGKTSLLDAIRKADVAKG-E-IGGITQHIGAYQVAYQGKNITFLDTPGHAAFYEMRARGARVTDIAVLVLAA  463 (884)
Q Consensus       386 v~v~ghvd~GKt~lld~~r~~~~~~~-e-~ggitq~iga~~~~~~~~~~~~iDtPGh~~f~~~r~rg~~~~d~~ilvv~~  463 (884)
T Consensus         3 ivllGd~~VGKTsli~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDtaG~e~f~~~~~~y~~~a~~~ilvfDi   82 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVFDV   82 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHHCCCCCCCCCCCCEEEEEEEEEECCEEEEEEEEECCCCCCCCHHHHHHHCCCCEEEEEEEC
T ss_conf             99999899678999999980977997266541579999999999999999997999843432469973568767999968


Q ss_pred             CCCCCHHHHHHHH-HHH--HCCCCEEEECCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCH
Q ss_conf             6674023577789-899--7099415612331244332000221000013200012347403631100247741122100
Q gi|254780787|r  464 DEEIMPQAIESIN-HAK--AADVSIIVAINKIDKLGADPQKVRMSLLKHDVFVESMGGDILDVEISAKNNLNLDKLLDAI  540 (884)
Q Consensus       464 ~~g~~~qt~e~~~-~~~--~~~~p~iva~nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  540 (884)
T Consensus        83 t~~~Sf~~~~~w~~~i~~~~~~~p~ilVgNK~DL~~~~----~~~~---~~~a~~~--~~~f~etSAk~g~nV~e~F~~l  153 (161)
T cd04124          83 TRKITYKNLSKWYEELREYRPEIPCIVVANKIDLDPSV----TQKK---FNFAEKH--NLPLYYVSAADGTNVVKLFQDA  153 (161)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHH----HHHH---HHHHHHC--CCEEEEEECCCCCCHHHHHHHH
T ss_conf             97788999999999999868699899999971177425----8999---9999986--9919999078380979999999


Q ss_pred             H
Q ss_conf             0
Q gi|254780787|r  541 L  541 (884)
Q Consensus       541 ~  541 (884)
T Consensus       154 ~  154 (161)
T cd04124         154 I  154 (161)
T ss_pred             H
T ss_conf             9