HHsearch alignment for GI: 254780820 and conserved domain: cd00394
>cd00394 Clp_protease_like Caseinolytic protease (ClpP) is an ATP-dependent protease. Clp protease (caseinolytic protease; ClpP; endopeptidase Clp; Peptidase S14; ATP-dependent protease, ClpAP)-like enzymes are highly conserved serine proteases and belong to the ClpP/Crotonase superfamily. Included in this family are Clp proteases that are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. The functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activity in the presence of ATP. Active site consists of the triad Ser, His and Asp, preferring hydrophobic or non-polar residues at P1 or P1' positions. The protease exists as a tetradec
Probab=95.28 E-value=0.077 Score=34.78 Aligned_cols=91 Identities=21% Similarity=0.307 Sum_probs=64.1
Q ss_pred HHCCCCCHHHHHHHHHHHHHHHHHC--CCEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCEE
Q ss_conf 3185357789999999999998628--96899976888776521246777788999999998629988998567642011
Q gi|254780820|r 131 FIGGSIGIAAGEAIVKSCERAIAEK--CPLVMFTASGGARMQEGILSLMQLPRTTIAINMLKDAGLPYIVVLTNPTTGGV 208 (284)
Q Consensus 131 F~GGSmG~~~geki~~a~e~A~~~~--~PlI~~~~SGGaRMqEG~~sL~qMakt~~a~~~l~~~~lP~I~vl~~pt~GGv 208 (284)
T Consensus 3 ~l~g~I~~~~a~~iv~~L~~l~~~~~~k~I~l~InSpGG~----v~~~~~---i~d~i---~~~~~~v~t~~~g~aaS~- 71 (161)
T cd00394 3 FINGVIEDVSADQLAAQIRFAEADNSVKAIVLEVNTPGGR----VDAGMN---IVDAL---QASRKPVIAYVGGQAASA- 71 (161)
T ss_pred EECCEECHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCC----HHHHHH---HHHHH---HHCCCCEEEECCCCEEEH-
T ss_conf 9665557899999999999998389999789999899988----899999---99999---961999999668737760-
Q ss_pred EEEE-CCCCCEEEEECCCEEECCCHH
Q ss_conf 1120-146852555314211023278
Q gi|254780820|r 209 TASY-AMLGDIHLAEPGAEIGFAGRR 233 (284)
Q Consensus 209 ~AS~-a~lgDiiiaep~a~igFaG~r 233 (284)
T Consensus 72 -g~~i~~a~~~~~~~p~s~v~~h~~~ 96 (161)
T cd00394 72 -GYYIATAANKIVMAPGTRVGSHGPI 96 (161)
T ss_pred -HHHHHHCCCCCCCCCCCEEEEECCC
T ss_conf -4566515885330887404552562