HHsearch alignment for GI: 254780787 and conserved domain: cd04110

>cd04110 Rab35 Rab35 subfamily. Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. 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-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is
Probab=99.06  E-value=6.1e-10  Score=85.96  Aligned_cols=147  Identities=22%  Similarity=0.290  Sum_probs=97.5

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHCCCC--CCEECCCEEEEECCCCEEEEEECCCHHHHHHHHHHHHHCCCCEEEEEEC
Q ss_conf             89862368504467778864222100123--1000121499951784388885166157899986664206805999983
Q gi|254780787|r  386 VTIMGHVDHGKTSLLDAIRKADVAKGEIG--GITQHIGAYQVAYQGKNITFLDTPGHAAFYEMRARGARVTDIAVLVLAA  463 (884)
Q Consensus       386 v~v~ghvd~GKt~lld~~r~~~~~~~e~g--gitq~iga~~~~~~~~~~~~iDtPGh~~f~~~r~rg~~~~d~~ilvv~~  463 (884)
T Consensus         9 IvlvGd~~VGKTSli~r~~~~~F~~~~~~Tig~d~~~k~v~i~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilvyDi   88 (199)
T cd04110           9 LLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDV   88 (199)
T ss_pred             EEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCEEEEEEEEEECCEEEEEEEEECCCCCCCCCCHHHHHHCCCCCEEEEEC
T ss_conf             99999799888999999950999998689755587899999999999999998999812353526664246542389717


Q ss_pred             CCCCCHHHHHHHHH----HH--HCCCCEEEECCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCEEEEEEECCCCCCCCCC
Q ss_conf             66740235777898----99--7099415612331244332000221000013200012347403631100247741122
Q gi|254780787|r  464 DEEIMPQAIESINH----AK--AADVSIIVAINKIDKLGADPQKVRMSLLKHDVFVESMGGDILDVEISAKNNLNLDKLL  537 (884)
Q Consensus       464 ~~g~~~qt~e~~~~----~~--~~~~p~iva~nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  537 (884)
T Consensus        89 t~---~~Sf~~l~~w~~~i~~~~~~~~~ilVGNK~Dl~~~r~--v~~~e~~--~~a~~~--~~~f~E~SAktg~nV~e~F  159 (199)
T cd04110          89 TN---GESFVNVKRWLQEIEQNCDDVCKVLVGNKNDDPERKV--VETEDAY--KFAGQM--GISLFETSAKENINVEEMF  159 (199)
T ss_pred             CC---HHHHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHHCC--CCHHHHH--HHHHHC--CCEEEEEECCCCCCHHHHH
T ss_conf             98---8999999999999997599875799988554475469--9999999--999986--9979998689992989999


Q ss_pred             CCHH
Q ss_conf             1000
Q gi|254780787|r  538 DAIL  541 (884)
Q Consensus       538 ~~~~  541 (884)
T Consensus       160 ~~i~  163 (199)
T cd04110         160 NCIT  163 (199)
T ss_pred             HHHH
T ss_conf             9999