HHsearch alignment for GI: 254780619 and conserved domain: TIGR00963
>TIGR00963 secA preprotein translocase, SecA subunit; InterPro: IPR000185 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component. . From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) . The chaperone protein SecB is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion . SecA is a cytoplasmic protein of 800 to 960 amino acid residues. Homologs of secA are also encoded in the chloroplast genome of some algae as well as in the nuclear genome of plants . It could be involved in the intraorganellar protein transport into thylakoids.; GO: 0005524 ATP binding, 0006605 protein targeting, 0006886 intracellular protein transport.
Probab=95.05 E-value=0.12 Score=31.68 Aligned_cols=265 Identities=18% Similarity=0.196 Sum_probs=143.8
Q ss_pred CCCHHHHHHHHHHHHHHHHCCCCEEEEECCCHHHH---HHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHCCCCEEEE
Q ss_conf 75315799999999998514684799715210013---445554303897689962355723566789999719973999
Q gi|254780619|r 226 VTGSGKTEVYLEIVAAVLHLGKQVLILLPEISLTS---AILERFQKRFGVKPAEWHSSLSTSMREKIWRQVARGAISVIV 302 (731)
Q Consensus 226 vTGSGKTEVYl~li~~~L~~GkqvLiLvPEI~Lt~---Q~~~rl~~rF~~~v~v~HS~ls~~eR~~~w~~i~~G~~~IVI 302 (731)
T Consensus 81 kTGEGKTL~AtLpaYLNAL~GkGVHvVTVNdYLA~RD~e~m~~v~~FLGL~VGl~~~~m~~~eRr~aY~------cDITY 154 (904)
T TIGR00963 81 KTGEGKTLVATLPAYLNALTGKGVHVVTVNDYLARRDAEWMGQVYRFLGLSVGLILSSMSPEERREAYA------CDITY 154 (904)
T ss_pred CCCCCHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHHHHHHHC------CCEEE
T ss_conf 148862899999999876517962799635044488899878999684936888617998589999854------98165
Q ss_pred EC----------------------CHHHHHHHCCCEEEEEEE-----------C-CCCCCH-----------HCCCCCCC
Q ss_conf 40----------------------012110010001367740-----------5-532100-----------00244322
Q gi|254780619|r 303 GV----------------------RSALFLPFKKLGLIVIDE-----------E-HDISYK-----------QEEGILYN 337 (731)
Q Consensus 303 Gt----------------------RSAif~P~~nLglIIvDE-----------E-Hd~syk-----------q~~~pry~ 337 (731)
T Consensus 155 ~TNnELGFDYLRDNM~~~~ee~vqR~f~FAIIDEVDSILIDEARTPLIISGpae~~~~~Y~ev~~~~~~l~e~~~~p--~ 232 (904)
T TIGR00963 155 GTNNELGFDYLRDNMALSKEEKVQRPFNFAIIDEVDSILIDEARTPLIISGPAEKSTEKYLEVNKLVDPLKETDKLP--Q 232 (904)
T ss_pred ECCCCCCHHHHHHHHHCCHHHHHCCCCCCEEEEEECCEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCC--C
T ss_conf 32654202466676411501210167222688642446423336865235766786301001787886641665575--0
Q ss_pred HHHHHHHHH-H-HCCCC-------EE-------C-CCCCCCHH-------HHHHHHHH-HHHHHC----------CCCCC
Q ss_conf 489999975-1-10321-------00-------0-02454324-------67753212-344412----------43223
Q gi|254780619|r 338 ARDMSIVRG-K-IESFP-------VV-------L-VSATPSIE-------SRVNGISR-RYHSVH----------LSTRY 382 (731)
Q Consensus 338 aRdvA~~Ra-~-~~~~~-------li-------l-gSATPSle-------s~~~~~~g-~~~~~~----------l~~R~ 382 (731)
T Consensus 233 a~~~~~~l~e~W~~dY~vDeK~r~v~Lte~G~~~WaE~~L~~~g~~~~~~nLyd~~n~~~~hyi~nALkA~~lf~kDvdY 312 (904)
T TIGR00963 233 ANEVAKALKEKWDVDYEVDEKNRNVLLTEKGMKKWAEDLLGVDGIIKGAVNLYDLENSPLIHYILNALKAKELFEKDVDY 312 (904)
T ss_pred HHHHHHHHHHHCCCCCEEECCCCEEEECCCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCE
T ss_conf 44568998631167703510417465140117899987532432144301301245334588899999999987439835
Q ss_pred CCCCCCCCEECCC-CCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEECCCCEEHHCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf 6765433211022-223322245479899999988622655179974222000000235654343101465201211357
Q gi|254780619|r 383 RNSALPHLQVIDM-RGQTIAQGKSLSPEMIDGIRHTLARNEQTLLFLNRRGYAPLTLCQVCGNRLKCLHCSCWLVEHRSK 461 (731)
Q Consensus 383 ~~~~~P~i~ivDm-~~~~~~~~~~lS~~l~~~i~~~l~~g~qvll~lnRrGya~~~~C~~Cg~~~~C~~C~~~l~~h~~~ 461 (731)
T Consensus 313 IV-~dgeV~IVDEFTGRim-~GRR~SdGLHQAi----EAKE~V~I~~En~T~At-------------------ITy---Q 364 (904)
T TIGR00963 313 IV-RDGEVVIVDEFTGRIM-EGRRWSDGLHQAI----EAKEGVEIQNENQTLAT-------------------ITY---Q 364 (904)
T ss_pred EE-ECCEEEEEEEECCCCC-CCCCCCCHHHHHH----HHHCCCEEECCCCEEEE-------------------HHH---H
T ss_conf 88-8887899873058338-8961242257999----97468601035522440-------------------445---7
Q ss_pred CCCEECHHHCCCCCCCCCCCCCCCCEECCCCCCHHHHHH-HHHHCC-------CC-CHHHHCCC-CC--CCCHHHHHHH-
Q ss_conf 832000021024465556667874110013542899888-852048-------52-00010232-11--3586789999-
Q gi|254780619|r 462 KKLYCHQCGHSAIYSQSCVVCGSSGKMIACGFGIERIAE-EVCEYF-------PL-ARISILSS-DL--EGGGGRLQLQ- 528 (731)
Q Consensus 462 ~~l~Ch~Cg~~~~~~~~Cp~Cg~~~~l~~~G~Gte~~~e-~l~~~f-------p~-~~v~~~d~-d~--~~~~~~~~~~- 528 (731)
T Consensus 365 Nf------------FrlY------~KLsGM-TGTA~TE~~EF~~IYnL~Vv~vPTNrp~~R~D~~DlvY~te~~Kw~Av~ 425 (904)
T TIGR00963 365 NF------------FRLY------EKLSGM-TGTAKTEEEEFEKIYNLEVVVVPTNRPVIRKDLPDLVYKTEEEKWKAVV 425 (904)
T ss_pred HH------------HHHH------HHHCCC-CCCHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCEECCHHHHHHHHH
T ss_conf 67------------6542------654468-7756899998404577513551667723446777734647688999999
Q ss_pred ---HHHHCCCCCCEEEEEHHH
Q ss_conf ---986212576579870443
Q gi|254780619|r 529 ---LSAIAKGEIDIIIGTQLV 546 (731)
Q Consensus 529 ---~~~~~~~~~~ilvgTq~i 546 (731)
T Consensus 426 ~e~~~~h~~GqP-vLvGT~sv 445 (904)
T TIGR00963 426 DEIKEIHAKGQP-VLVGTTSV 445 (904)
T ss_pred HHHHHHHHCCCC-EEEEECCH
T ss_conf 999998746898-77752217