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