>TIGR01241 FtsH_fam ATP-dependent metallopeptidase HflB; InterPro: IPR005936 Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site . The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases . Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. This group of metallopeptidases belong to MEROPS peptidase family M41 (FtsH endopeptidase family, clan MA(E)). The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. FtsH is a membrane-anchored ATP-dependent protease that degrades misfolded or misassembled membrane proteins as well as a subset of cytoplasmic regulatory proteins. FtsH is a 647-residue protein of 70 kDa, with two putative transmembrane segments towards its N terminus which anchor the protein to the membrane, giving rise to a periplasmic domain of 70 residues and a cytoplasmic segment of 520 residues containing the ATPase and protease domains . ; GO: 0004222 metalloendopeptidase activity, 0030163 protein catabolic process, 0016020 membrane.

Probab=98.77 E-value=4.6e-09 Score=83.72 Aligned_cols=219 Identities=17% Similarity=0.244 Sum_probs=136.7 Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCC---CCCCCCCC-------CCCCEEEEEECCCCCHHHHHHHHHHHCCCCCCCCCC Q ss_conf 22222222211111111222222222---22222223-------443204887327774367999999842675433210 Q gi|254780916|r 126 EGVVPSQENEHCALDSLIAVSPAMIQ---VVDLARKA-------GDCAIPIMIQGEFGVGKKRLSRFIHESGKRAFFPFF 195 (482) Q Consensus 126 ~~~~~~~~~~~~~~~~LiG~S~~m~~---v~~~i~~~-------a~~~~~vli~Ge~GtGK~~~A~~iH~~s~r~~~~fi 195 (482) T Consensus 45 ~Ak~~~~~~~kv~F~DVAG~dEAKeEl~EiVdFLK~P~kf~~LGaKIPKGVLLvGPPGTGKTLLAKAvAGE---A~VPFF 121 (505) T TIGR01241 45 KAKLLNEEKPKVTFKDVAGIDEAKEELVEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGE---AGVPFF 121 (505) T ss_pred HHHHHCCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHCC---CCCCCE T ss_conf 89873058981322344453233343331342226963798727889871473178784246788752025---889624 Q ss_pred CCCCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCC---CEEEECCCCHHHHHHHHHHHHHHHHHHCCCCCCC--CC Q ss_conf 123465542100243311255553221110012344667---1475166420018899988887764200112355--32 Q gi|254780916|r 196 IVNCGMIDQDKIEKFLFGDVDLQTKNSAQFLGKFIEANG---GTIVLEEPDALPLAVQGRIYNFIETGKIEFFDSR--GA 270 (482) Q Consensus 196 ~v~c~~~~~~~~e~~lFG~~~~~~~~~~~~~g~~~~a~~---Gtl~l~ei~~L~~~~Q~~Ll~~l~~~~~~~~g~~--~~ 270 (482) T Consensus 122 ~iSGSdF-----VEMFVGV------GASRVRDLFeqAK~nAPCIIFIDEIDAVGr~RG----------aG~lGGGnDERE 180 (505) T TIGR01241 122 SISGSDF-----VEMFVGV------GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRG----------AGELGGGNDERE 180 (505) T ss_pred EECCCCE-----EECCCCC------CCEEHHHHHHHHHHHCCCEEEEECHHHCCCCCC----------CCCCCCCCCHHH T ss_conf 7407610-----1112056------400014457999971897056401000033356----------436676541355 Q ss_pred CCC--------------CCEEEEECCCC--C-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 123--------------43156521433--2-111111233379998865433446778774422225566777641011 Q gi|254780916|r 271 IRL--------------DVRLIFLTEKN--L-LPQVKSHVFRKDLYYRISVFLINISTLRSRSEDIPWLVHFFLQSFCTK 333 (482) Q Consensus 271 ~~~--------------~~RiIa~t~~~--L-~~~~~~g~fr~dLy~rL~~~~i~iPpLReR~eDI~~L~~~fl~~~~~~ 333 (482) T Consensus 181 QTLNQLLVEMDGF~~~~gvIv~AATNRPDvLD~ALLRPGRFDR-------Qv~V~~PD~~GR~~-I-------L~VH~~~ 245 (505) T TIGR01241 181 QTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDR-------QVVVDLPDIKGREE-I-------LKVHAKN 245 (505) T ss_pred HHHHHHHEECCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCC-------EEECCCCCHHHHHH-H-------HHHHHCC T ss_conf 4332331331785898857998504884116510068787445-------13458887467899-9-------9998548 Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCC-HHHHHHHHHHHHH-HC--CCCCCCHHHHHHHHCC Q ss_conf 223333211111000122338986-8999999999987-43--8981068895454212 Q gi|254780916|r 334 NAIKQISISDKALSLLTKYPWIDN-VQELKNILLRAVI-GL--KDSHLTEDRFVLLLSR 388 (482) Q Consensus 334 ~~~~~~~ls~~a~~~L~~y~WPGN-vREL~n~i~r~~i-~~--~~~~i~~~~~~~~l~~ 388 (482) T Consensus 246 ~k-----La~~vdL~~~Ar~TPGfSGADLaNl~NEAALlAAR~n~~~i~~~~~eeA~Dr 299 (505) T TIGR01241 246 KK-----LAPDVDLKAVARRTPGFSGADLANLLNEAALLAARKNKTEITMNDIEEAVDR 299 (505) T ss_pred CC-----CCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCEECHHHHHHHHHH T ss_conf 89-----9702477999701568767889999999999986179865628889878776

HHsearch alignment for GI: 254780916 and conserved domain: TIGR01241