HHsearch alignment for GI: 254781026 and conserved domain: TIGR00390

>TIGR00390 hslU heat shock protein HslVU, ATPase subunit HslU; InterPro: IPR004491 This family of proteins represent HslU, a bacterial clpX homolog, which is an ATPase and chaperone belonging to the AAA Clp/Hsp100 family and a component of the eubacterial proteasome. ATP-dependent protease complexes are present in all three kingdoms of life, where they rid the cell of misfolded or damaged proteins and control the level of certain regulatory proteins. They include the proteasome in Eukaryotes, Archaea, and Actinomycetales and the HslVU (ClpQY, ClpXP) complex in other eubacteria. Genes homologous to eubacterial HslV, IPR001353 from INTERPRO, (ClpQ,) and HslU (ClpY, ClpX) have also been demonstrated in to be present in the genome of trypanosomatid protozoa. They are expressed as precursors, with a propeptide that is removed to produce the active protease. The protease is probably located in the kinetoplast (mitochondrion). Phylogenetic analysis shows that HslV and HslU from trypanosomatids form a single clad with other eubacterial homologs . ; GO: 0005515 protein binding, 0005524 ATP binding, 0009377 HslUV protease activity, 0016887 ATPase activity, 0005737 cytoplasm, 0009376 HslUV protease complex.
Probab=97.27  E-value=0.00012  Score=48.08  Aligned_cols=78  Identities=22%  Similarity=0.375  Sum_probs=47.9

Q ss_pred             CCCCEEEEECHHHCCHHH-------------HHHHHHHHHCCCEEEHHCCEEEEECCCEEEEEE--CCCCCCCCCCCCCC
Q ss_conf             799889980387859889-------------999999997195230100307898470156752--27465887889887
Q gi|254781026|r   80 AHNGVLFLDEIPEFSPQT-------------LNALRQPLETGECIIARANRKISYPSRIQLIAA--MNPCRCGMSNKDEN  144 (186)
Q Consensus        80 Ah~GVLflDE~~e~~~~~-------------l~~L~~~le~g~v~i~R~g~~~~~Pa~f~Lvaa--~NPcpcG~~~~~~~  144 (186)
T Consensus       267 E~~GiiFIDEIDKIa~~~~e~S~~DvSrEGVQRDlL-PiVEGS~V~TKyG~VkT--dHiLFIAaGAF~lA-----KPSD-  337 (463)
T TIGR00390       267 EQSGIIFIDEIDKIAKKGKESSGADVSREGVQRDLL-PIVEGSTVNTKYGSVKT--DHILFIAAGAFHLA-----KPSD-  337 (463)
T ss_pred             HHCCCEEEECCHHHHCCCCCCCCCCCCCCCCCCCCC-CCCCCCEEEEECCEEEC--CHHHHHHHHHHCCC-----CCCC-
T ss_conf             847828985303542168886788876556510114-20226664310010422--15787675232027-----7766-


Q ss_pred             CCCCCHHHHHHHHHHCCHHHHHCCCEEEECCCCCHHH
Q ss_conf             6438999999998512243210042599838856688
Q gi|254781026|r  145 VCIRGPRCATEYQARISGPLMDRIDIRIAVPSRTHIR  181 (186)
Q Consensus       145 ~c~c~~~~~~~Y~~rls~plldR~Dl~v~~~~~~~~~  181 (186)
T Consensus       338 ---------------LIPELQGRfPirVEL~~Lt~~d  359 (463)
T TIGR00390       338 ---------------LIPELQGRFPIRVELEALTVDD  359 (463)
T ss_pred             ---------------CCCHHHCCCCHHHHHHHHHHHH
T ss_conf             ---------------6631106673778767632999