>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=99.17 E-value=2.3e-11 Score=104.84 Aligned_cols=285 Identities=24% Similarity=0.408 Sum_probs=167.5 Q ss_pred HHHHCHHHHHHHHHHHHHHHHHCC----CCCCCE---EEEECCCCCCHHHHHHHHHHHHCCCEEEEECCCCCCHHHHCCC Q ss_conf 652011689999999999998424----446735---9986056565027999999770882499861888888883563 Q gi|254780270|r 339 QDHFGLEKVKERIIEYLAVQMRVI----KNKGLI---LCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGH 411 (820) Q Consensus 339 ~~hyGl~~vK~rile~lav~~~~~----~~~g~i---l~l~gppgvGKts~~~sia~al~r~f~~islgg~~d~~~i~gh 411 (820) T Consensus 59 ~DVAG~dEAKeEl~EiVdFLK-~P~kf~~LGaKIPKGVLLvGPPGTGKTLLAKAvAGEA~VPFF~iS--G-SdFVE---- 130 (505) T TIGR01241 59 KDVAGIDEAKEELVEIVDFLK-NPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSIS--G-SDFVE---- 130 (505) T ss_pred CCCCCCHHHHHHHHHHHHHCC-CCHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHCCCCCCCEEEC--C-CCEEE---- T ss_conf 344453233343331342226-963798727889871473178784246788752025889624740--7-61011---- Q ss_pred CCCCCCCCCHHHHHHHHHCCCCCE-EEEEECHHHHHHHCCCC--HHHH----------HHHHCCCCCCCCEEEEECCCCC Q ss_conf 200145671289999983278873-99993315542311771--1556----------6554060016813320103523 Q gi|254780270|r 412 RRTYIGSMPGRIIQSLKRAKRSNP-LLLLDEIDKMGSDLRGD--PSAA----------LLEVLDPAQNSSFVDHYLEVEY 478 (820) Q Consensus 412 ~~ty~ga~pg~ii~~l~~~~~~np-v~~ldeidk~~~~~~gd--p~~a----------llevldp~qn~~f~d~y~~~~~ 478 (820) T Consensus 131 --MFVGVGASRVRDLFeqAK~nAPCIIFIDEIDAVGr~-RGaG~lGGGnDEREQTLNQLLVEM-----DGF~~~------ 196 (505) T TIGR01241 131 --MFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQ-RGAGELGGGNDEREQTLNQLLVEM-----DGFGTN------ 196 (505) T ss_pred --CCCCCCCEEHHHHHHHHHHHCCCEEEEECHHHCCCC-CCCCCCCCCCCHHHHHHHHHHEEC-----CCCCCC------ T ss_conf --120564000144579999718970564010000333-564366765413554332331331-----785898------ Q ss_pred CCCCEEEEEECCCCC-CCHHH-----CCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCC Q ss_conf 644279999348655-44131-----172479982587868999899986089899862578131322899999997317 Q gi|254780270|r 479 DLSDVMFIMTANTLN-IPLPL-----MDRMEIIRIAGYTEEEKLQIAKNHLVKKVLTEHALKQEECCISDGVLLDIIRLF 552 (820) Q Consensus 479 dls~v~fi~tan~~~-i~~~l-----~drme~i~~~~y~~~ek~~i~~~~l~p~~~~~~~~~~~~~~~~~~~i~~ii~~Y 552 (820) T Consensus 197 --~gvIv~AATNRPDvLD~ALLRPGRFDRQv~V~~PD~~G--R~~IL~VH~~------------~~kLa~~vdL~~~Ar~ 260 (505) T TIGR01241 197 --TGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKG--REEILKVHAK------------NKKLAPDVDLKAVARR 260 (505) T ss_pred --CCEEEEEECCCCCCCCCCCCCCCCCCCEEECCCCCHHH--HHHHHHHHHC------------CCCCCCCCCHHHHHHH T ss_conf --85799850488411651006878744513458887467--8999999854------------8899702477999701 Q ss_pred CC-CCHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCHHHHHHH-----HCCCC--------------------------- Q ss_conf 74-1023478887999989876542117852012796786753-----05200--------------------------- Q gi|254780270|r 553 TH-EAGVRSFERALMKIARKAVTKIVKNSDTTVSINENNLQDY-----LGVPR--------------------------- 599 (820) Q Consensus 553 t~-EaGvR~l~r~i~~i~r~~~~~~~~~~~~~~~i~~~~l~~~-----lg~~~--------------------------- 599 (820) T Consensus 261 TPGfSGA-----DLaNl~NEAALlAAR~n~~--~i~~~~~eeA~Drv~~G~ekKsr~is~~eK~~vAYHEaGHAl~G~~~ 333 (505) T TIGR01241 261 TPGFSGA-----DLANLLNEAALLAARKNKT--EITMNDIEEAVDRVIAGLEKKSRVISEKEKKIVAYHEAGHALVGLLL 333 (505) T ss_pred CCCCCHH-----HHHHHHHHHHHHHHHCCCC--EECHHHHHHHHHHHHCCCCCCCCCCCHHHCCEEEEECHHHHHHHHHC T ss_conf 5687678-----8999999999998617986--56288898787765227667885326777422201115789999735 Q ss_pred CCCCCHHCCCCC--CC-CCEEEEC-CCCCEEEEEE-E-------EEECCC-------C-CEEECCCHHHHHHHHHHHHHH Q ss_conf 033200022336--50-0000000-0168079999-9-------997489-------9-724432568999999999999 Q gi|254780270|r 600 YKYGKIEGEDQV--GI-VTGLAWT-EVGGEILTVE-G-------VIMPGK-------G-EITITGNLKEIMKESILAASS 659 (820) Q Consensus 600 ~~~~~~~~~~~~--G~-v~GLa~t-~~GG~~l~IE-~-------~~~~g~-------g-~l~lTG~lg~vmkES~~~A~s 659 (820) T Consensus 334 ~~~DpV~KvTIIPRG~~AlG~t~~lP~~~D~~l~~k~~L~~~i~~~lGGRaAEe~~fG~~~vttGA~nD~~~-----AT~ 408 (505) T TIGR01241 334 KDADPVHKVTIIPRGQGALGYTQFLPEEGDKYLYTKKQLLAKIAVLLGGRAAEEIIFGEEEVTTGASNDLKQ-----ATN 408 (505) T ss_pred CCCCCCCCEEECCCCCCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHEEEEECCCCCCCCCCCHHHHH-----HHH T ss_conf 344752325631478441551683677444100368899999998732031002230788732362115899-----999 Q ss_pred HHHHHHHHCCCCHH Q ss_conf 99998886299855 Q gi|254780270|r 660 YVRSKATTFGIIPS 673 (820) Q Consensus 660 ~~k~~~~~~~~~~~ 673 (820) T Consensus 409 iAr~MVT~~GMS~k 422 (505) T TIGR01241 409 IARAMVTEWGMSEK 422 (505) T ss_pred HHHHHCCCCCCCCC T ss_conf 99973153367420

HHsearch alignment for GI: 254780270 and conserved domain: TIGR01241