HHsearch alignment for GI: 254780781 and conserved domain: cd03359
>cd03359 LbH_Dynactin_5 Dynactin 5 (or subunit p25); Dynactin is a major component of the activator complex that stimulates dynein-mediated vesicle transport. Dynactin is a heterocomplex of at least eight subunits, including a 150,000-MW protein called Glued, the actin-capping protein Arp1, and dynamatin. In vitro binding experiments show that dynactin enhances dynein-dependent motility, possibly through interaction with microtubules and vesicles. Subunit p25 is part of the pointed-end subcomplex in dynactin that also includes p26, p27, and Arp11. This subcomplex interacts with membranous cargoes. p25 and p27 contain imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X), indicating a left-handed parallel beta helix (LbH) structural domain. Proteins containing hexapeptide repeats are often enzymes showing acyltransferase activity.
Probab=99.53 E-value=1.1e-13 Score=104.29 Aligned_cols=135 Identities=19% Similarity=0.260 Sum_probs=84.1
Q ss_pred CCCCCCCCEECC--CCCCCCCCEEEC-CEEEC---CCCCCCCCCCCCCCEEC------------CEEEECCCCEEECCCE
Q ss_conf 751025431035--640066514620-10302---35336772015661232------------2047306868812321
Q gi|254780781|r 108 NFRIIPGTIVRH--SAYIGPKAVLMP-SFVNM---GAYIGEGSMIDTWSTVG------------SCAQIGKNVHISGGVG 169 (285)
Q Consensus 108 g~rv~P~a~vr~--ga~Ig~g~vimp-~~Vni---GA~Ig~gt~I~~~a~IG------------~~a~IG~~vhI~~g~~ 169 (285)
T Consensus 7 gn~I~k~a~I~G~~nI~IG~~ssI~~~avirGD~~~I~IG~~~~I~d~~~I~~~~~~~~~~~~~~p~~IGd~v~Ig~~~~ 86 (161)
T cd03359 7 GNKVSRKSVICGSQNIVLNGKTIIQSDVIIRGDLATVSIGRYCILSEGCVIRPPFKKFSKGVAFFPLHIGDYVFIGENCV 86 (161)
T ss_pred CCEECCCCEEECCCCEEECCCCEECCCCEEECCCCCEEECCCCEECCCCEEECCCCCCCCCCCCCCCEECCCEEECCCEE
T ss_conf 99587762997887759999878999968967886549999858889989924644357788887728489879899828
Q ss_pred ECCEECCCCCCCEEECCCCEEECCCEEECCEEECCCCEEEEEEEECCCCEEEECCCCCEEEEECCCCCEEECCCCCCCCC
Q ss_conf 12100577656448725847821857846888458856630046527833687158814644549987896056445567
Q gi|254780781|r 170 IGGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVLGMGVFIGKSTKIIDRNTGEITYGEVPSYSVVVPGSYPSINL 249 (285)
Q Consensus 170 IGGvlep~~a~pviIeD~v~IGa~s~I~~Gv~Ig~gavIgaG~vit~st~i~d~~~~~~~~g~vP~~~vvvpg~~~~~~~ 249 (285)
T Consensus 87 i~~---------~~Ig~~v~IG~~~~I~~g~~Ig~~~~I~~gsvV~~~~~-------------ip~~~~~--~G~----- 137 (161)
T cd03359 87 VNA---------AQIGSYVHIGKNCVIGRRCIIKDCVKILDGTVVPPDTV-------------IPPYSVV--SGR----- 137 (161)
T ss_pred EEC---------CEECCCEEECCCCEECCCCEECCCCEECCCCEECCCCE-------------ECCCCEE--EEC-----
T ss_conf 848---------89667715579819949979999989988989889989-------------8998199--851-----
Q ss_pred CCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHHC
Q ss_conf 7665776446727989612024668889987511
Q gi|254780781|r 250 KGDIAGPHLYCAVIIKKVDEKTRSKTSINTLLRD 283 (285)
Q Consensus 250 ~~~~~~~~~~cavi~~~~d~~t~~k~~ln~~lR~ 283 (285)
T Consensus 138 ----------Pak~i~~l~e~~~--~~~~~~~~~ 159 (161)
T cd03359 138 ----------PARFIGELPECTQ--ELMEEETKE 159 (161)
T ss_pred ----------CEEEEEECCHHHH--HHHHHHHHH
T ss_conf ----------8089576999999--999998986