>TIGR00764 lon_rel ATP-dependent protease, putative; InterPro: IPR004663 Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes . They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence . Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases . Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base . The geometric orientations of the catalytic residues are similar between families, despite different protein folds . The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) , . 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 signature defines the archaeal lon protease homologs, which are ATP-dependent serine peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SF). Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein conserved region.; GO: 0004176 ATP-dependent peptidase activity, 0005524 ATP binding, 0030163 protein catabolic process.

Probab=99.93 E-value=1.9e-24 Score=204.03 Aligned_cols=383 Identities=27% Similarity=0.417 Sum_probs=260.3 Q ss_pred HHHCCCEEEEECCCCCCHHHHCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECHHHHHHHCCCCHHHHHHHHCCC--CC Q ss_conf 7708824998618888888835632001456712899999832788739999331554231177115566554060--01 Q gi|254780270|r 388 KATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKRSNPLLLLDEIDKMGSDLRGDPSAALLEVLDP--AQ 465 (820) Q Consensus 388 ~al~r~f~~islgg~~d~~~i~gh~~ty~ga~pg~ii~~l~~~~~~npv~~ldeidk~~~~~~gdp~~allevldp--~q 465 (820) T Consensus 204 d~~h~p~~c~~~~~lg~p~----h~~~~~g~~h----------~~~~g~l~~d~~~~~~~~~~~~~l~~~~~~~~p~~g~ 269 (662) T TIGR00764 204 DVRHDPFGCFGSGGLGTPA----HERVEAGAIH----------RAHKGVLYIDEIGTLPLEVQQYLLTALQDKKFPITGQ 269 (662) T ss_pred HHCCCCCCCCCCCCCCCCC----HHHHHHHHHH----------HHCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCC T ss_conf 1002520003788888750----1232322123----------3205505540113221135788887654113543567 Q ss_pred CCCEEEEEC---CCCCCCCCEEEEEECCC--C-CCCHHHCCCEEEEEECCCCH------HHHHHHHHHHHHHHHHHHHCC Q ss_conf 681332010---35236442799993486--5-54413117247998258786------899989998608989986257 Q gi|254780270|r 466 NSSFVDHYL---EVEYDLSDVMFIMTANT--L-NIPLPLMDRMEIIRIAGYTE------EEKLQIAKNHLVKKVLTEHAL 533 (820) Q Consensus 466 n~~f~d~y~---~~~~dls~v~fi~tan~--~-~i~~~l~drme~i~~~~y~~------~ek~~i~~~~l~p~~~~~~~~ 533 (820) T Consensus 270 ~~~~~g~~~~~~p~pcd---f~l~~~g~~~~~~~~~~~l~~~~~g~gy~~~~~~~~~~~~~~~~~l~~f~~~~~-~~~g- 344 (662) T TIGR00764 270 SENSSGAMVRTEPVPCD---FILVASGNLDDLEGLHPALRSRIRGYGYEVYLKDTMPDTPENRDKLVQFVAQEV-KKDG- 344 (662) T ss_pred CCCCCCCEEECCCCCCC---EEEEECCCHHHHHHCCHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHHH-HHCC- T ss_conf 76555641211566621---445514654565410045665430144168872667775024789999999987-6247- Q ss_pred CCCCCCCCHHHHHHHHHCCCCCCHHHH---HH-HHHHHHHHHHHH--------HHHCCC--------------CCEECCC Q ss_conf 813132289999999731774102347---88-879999898765--------421178--------------5201279 Q gi|254780270|r 534 KQEECCISDGVLLDIIRLFTHEAGVRS---FE-RALMKIARKAVT--------KIVKNS--------------DTTVSIN 587 (820) Q Consensus 534 ~~~~~~~~~~~i~~ii~~Yt~EaGvR~---l~-r~i~~i~r~~~~--------~~~~~~--------------~~~~~i~ 587 (820) T Consensus 345 --~~~~~~~~~~~~~~~~~~~~~g~~~~l~l~l~~l~~~~~~~~d~~~g~d~~~~~g~~dd~g~~~p~~~~d~~~~~~~~ 422 (662) T TIGR00764 345 --RLPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKGKDVEELLGNFDDKGEYHPETQKDSSGKEYVT 422 (662) T ss_pred --CCCCCCHHHHHHHHHHHHHHCCCCCCCEEHHHHHHHHHHHHCCHHCCCCHHHHHCCCCCCCCCCCCCCCCCCCCHHHH T ss_conf --888642678999999988622764420102566633665310011144368873354444444763123334520001 Q ss_pred HHHH----------------HHHHCC-CCCCCCCHHCCCCCCCCCEEEECC-CCCEEEEEEEEEE----CCCCCEEECCC Q ss_conf 6786----------------753052-000332000223365000000000-1680799999997----48997244325 Q gi|254780270|r 588 ENNL----------------QDYLGV-PRYKYGKIEGEDQVGIVTGLAWTE-VGGEILTVEGVIM----PGKGEITITGN 645 (820) Q Consensus 588 ~~~l----------------~~~lg~-~~~~~~~~~~~~~~G~v~GLa~t~-~GG~~l~IE~~~~----~g~g~l~lTG~ 645 (820) T Consensus 423 ~~~~~~~~~~~~~~~~~~~~~~y~~~~~~y~~~~p~~~~~~g~~~gl~~~g~~~g~~~~~~~~~~~~~~~~~g~~~~~g~ 502 (662) T TIGR00764 423 AEHVLKAKKLGKTSLEKQLADNYIERKKRYKVFVPNEGGEVGRVNGLAVLGEAGGIGLPIKAEVAPAESKEEGRILLTGK 502 (662) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCEECCCCCCCCEEEEEEEEECCCCCCCHHHHHHHHHHHCCCCCCEEECCC T ss_conf 56778877642234678888888764210203302677631023101233145552024555543320257772675042 Q ss_pred HHHHHHHHHHHHHHHHHHHHHH--CCCCHH--HHHHCCCEEECCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEE Q ss_conf 6899999999999999998886--299855--742078147448888478887306899999999983688875610663 Q gi|254780270|r 646 LKEIMKESILAASSYVRSKATT--FGIIPS--AFNEINIHVHVPEGATPKDGPSAGIAMATAIVSIMTCIPVYKNVAMTG 721 (820) Q Consensus 646 lg~vmkES~~~A~s~~k~~~~~--~~~~~~--~~~~~diHih~p~Ga~pKDGPSAGi~i~tal~S~~~~~~v~~~iAmTG 721 (820) T Consensus 503 ~g~~~~~~~~~~~~~~~~~~~~~~~p~p~~d~d~~~~~~~~~f~~~y~~~~gd~~~~~~~~~~~~~~~~~p~~~~~~~~g 582 (662) T TIGR00764 503 LGEIAKEAVLNVSALIKKYTGEKKLPLPKKDIDLSNYDIHIQFLQTYEGVEGDSASISVATAVISALEEIPVDQDVALTG 582 (662) T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCEEEEC T ss_conf 24567788878888887641111367762224445421566430000234554025788999998875066422101002 Q ss_pred EEEECCEEEEECCHHHHHHHHHHCCCCEEECCHHHHHHHHHCCHHHHCCCEEEECCCHHHHHHHHHCCCCC Q ss_conf 68503025000656899999997099699803677550776148877097999819399988876027887 Q gi|254780270|r 722 ELTLRGRVLPIGGLKEKLLAALRAGVTKVLIPEENIKDLMDIPENVKNGLEIIPVSFMGEVLKHALLRMPD 792 (820) Q Consensus 722 Eitl~G~VlpiGGi~eK~laA~raGi~~viiP~~N~~d~~~ip~~~~~~l~~~~v~~~~evl~~al~~~~~ 792 (820) T Consensus 583 ~l~~~g~~l~~gg~~~~~~~~~~~g~~~~~~p~~~~~d~~-~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~ 652 (662) T TIGR00764 583 SLSLRGEVLPVGGVTEKIEAAIEAGLKKVIIPKSNLGDVL-LDPETEGKIEIIPVETLDEVLEHVLDLDKK 652 (662) T ss_pred CCCCCCCEEECCCCCHHHHHHHHCCCCEEECCCCCCCCEE-ECCCCCCCEEEECCHHHHHHHHHHHHCCCC T ss_conf 2112554232176523567887505203430354432002-223234724663001233455544303654

HHsearch alignment for GI: 254780270 and conserved domain: TIGR00764