HHsearch alignment for GI: 254780942 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=99.83 E-value=3.4e-20 Score=133.38 Aligned_cols=134 Identities=21% Similarity=0.227 Sum_probs=89.4
Q ss_pred EEECCCCCEEC--CCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCEEEEECCCCCCCCC
Q ss_conf 23317841001--2232234420002111631343321211121002134432000002586443202310211247854
Q gi|254780942|r 268 TIIQPDTVIEP--HVFFGCGVSIENYVQIRAFSYLEGVHIGKKTIIGPFARIRQETTIEKNVRIGNFCEVKKATIKEGSK 345 (442)
Q Consensus 268 ~~I~~~~~I~~--~~~Ig~~~~Ig~~~~I~~~~~i~~~~Ig~~~~Ig~~~~i~~~s~i~~~~~Ig~~~ei~~s~i~~g~~ 345 (442)
T Consensus 8 n~I~k~a~I~G~~nI~IG~~ssI~~~avirGD~--~~I~IG~~~~I~d~~~I~~~~~~~~~-----------------~- 67 (161)
T cd03359 8 NKVSRKSVICGSQNIVLNGKTIIQSDVIIRGDL--ATVSIGRYCILSEGCVIRPPFKKFSK-----------------G- 67 (161)
T ss_pred CEECCCCEEECCCCEEECCCCEECCCCEEECCC--CCEEECCCCEECCCCEEECCCCCCCC-----------------C-
T ss_conf 958776299788775999987899996896788--65499998588899899246443577-----------------8-
Q ss_pred CCCCCCCCCCEECCCCEECCCEEECCCCCCCCCCCEECCCCEECCCCEEECCEEECCCCEECCCCEECCC--CCCCCEEE
Q ss_conf 4874555663988998997980883445775456298788798869989378398899899778357664--36986898
Q gi|254780942|r 346 INHLSYVGDSVVGKNVNIGAGTITCNYDGTHKYKTHINENAFIGSNSSLIAPITIGQGTYVASGSIITQD--TPENSLVF 423 (442)
Q Consensus 346 i~~~~~igd~~iG~~~~ig~g~i~~n~~g~~~~~~~ig~~~~iG~~~~i~~gv~ig~~~~i~ag~~v~~d--v~~~~~v~ 423 (442)
T Consensus 68 ----~~~~p~~IGd~v~Ig~~~~i--------~~~~Ig~~v~IG~~~~I~~g~~Ig~~~~I~~gsvV~~~~~ip~~~~~~ 135 (161)
T cd03359 68 ----VAFFPLHIGDYVFIGENCVV--------NAAQIGSYVHIGKNCVIGRRCIIKDCVKILDGTVVPPDTVIPPYSVVS 135 (161)
T ss_pred ----CCCCCCEECCCEEECCCEEE--------ECCEECCCEEECCCCEECCCCEECCCCEECCCCEECCCCEECCCCEEE
T ss_conf ----88877284898798998288--------488966771557981994997999998998898988998989981998
Q ss_pred ECCCEEEECC
Q ss_conf 1356077077
Q gi|254780942|r 424 ARSRQIVKED 433 (442)
Q Consensus 424 ~~~~~~~~~~ 433 (442)
T Consensus 136 G~Pak~i~~l 145 (161)
T cd03359 136 GRPARFIGEL 145 (161)
T ss_pred ECCEEEEEEC
T ss_conf 5180895769