>TIGR00763 lon ATP-dependent protease La; InterPro: IPR004815 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 bacterial and eukaryotic lon proteases, which are ATP-dependent serine peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SF). This family of sequences does not include the archaeal lon homologs, IPR004663 from INTERPRO. In the eukaryotes the majority of the proteins are located in the mitochondrial matrix , . In yeast, Pim1, is located in the mitochondrial matrix, is required for mitochondrial function, is constitutively expressed but is increased after thermal stress, suggesting that Pim1 may play a role in the heat shock response .; GO: 0004176 ATP-dependent peptidase activity, 0005524 ATP binding, 0006510 ATP-dependent proteolysis.

Probab=99.86 E-value=1.4e-20 Score=166.99 Aligned_cols=315 Identities=22% Similarity=0.353 Sum_probs=229.8 Q ss_pred HCCCEECCHHHHHH-HHHHHHHCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCHHHHHCC Q ss_conf 10351211178999-99865420155-56467988998653333211443221136578999866310245310111001 Q gi|254780163|r 386 HHQLRYSKEAIRAA-VQLSVRHFTSR-KLPDKAIDVIDEAGASQILQPLSKRRKFITEKDIKKTIASMNRSIHTTSFSRD 463 (798) Q Consensus 386 ~h~v~~~~~al~~a-v~ls~ryi~~r-~lPdkAidllDea~a~~~~~~~~~~~~~~~~~~i~~~~~~~~~gip~~~~~~~ 463 (798) T Consensus 322 yhELG~~~d~~~~~~~~~~~kle~~~e~~P~~~~k~~~~-----El~kL~~l~~~SsE~~v~RnYLDwl~~lPW~~~S~~ 396 (941) T TIGR00763 322 YHELGIEKDDKDELIEKLKEKLEELKEFLPEEVKKVIEK-----ELTKLELLEPSSSEFTVTRNYLDWLTDLPWGKYSKE 396 (941) T ss_pred HHHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHH-----HHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCCCH T ss_conf 752589998647899999999874057477468999999-----998750588335304679999999983772214702 Q ss_pred -HHHHHHHHCCHHHHHHHCHHHHHHHHHHHHHHH---------HCCCC-CCCCC-CCEEEEECCCCHHHHHHHHHHHHHC Q ss_conf -123342100002466534589999999998775---------20445-65787-4068861432003889999987304 Q gi|254780163|r 464 -DDSVLSNLEKNLGTVVYGQEEAIKKLSSSIKIA---------RAGLS-DPNKP-IGCYVFSGPTGVGKTEISKQLAFAL 531 (798) Q Consensus 464 -~~~~l~~l~~~l~~~v~GQ~~ai~~v~~~i~~~---------~~gl~-~~~rP-~g~flf~GptGvGKTelak~la~~~ 531 (798) T Consensus 397 f~n~Dl~~A~~~LD~DHYGL~~VK~RIlEYlAV~qllemrrkkkPkL~~~~~GpqI--lClvGPPGVGKTSlg~SIA~AL 474 (941) T TIGR00763 397 FDNLDLKRAKEILDEDHYGLKKVKERILEYLAVQQLLEMRRKKKPKLRGKMKGPQI--LCLVGPPGVGKTSLGKSIAKAL 474 (941) T ss_pred HHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEE--EEEECCCCCCHHHHHHHHHHHH T ss_conf 66521899999831678888773034135888989998764036444778888767--8720726954222789999996 Q ss_pred CCCEEEEEHHHHHCCCCCCHHCCCCCHHCCCCCCCCCCHHHHH--CCCEEEEECCHHHCC--HH----HHHHHHHHHH-- Q ss_conf 7733772068861246530110478000256444310035551--585177740445502--89----9999999877-- Q gi|254780163|r 532 GVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQGGILADSVDQ--NPYSVVLLDEIEKSH--PD----VLNILLQIMD-- 601 (798) Q Consensus 532 ~~~lir~dmsey~e~~~vs~LiGappGYvG~~egg~Lte~vr~--~P~sVvl~DEiEKAh--~~----v~~~llqild-- 601 (798) T Consensus 475 nRkFvR~SlGG~~---DeAEIrGHRRTYvGA-MPGriiQ~lk~~~t~NPl~LlDEIDK~~~~~~~~GDPaSALLEvLDPE 550 (941) T TIGR00763 475 NRKFVRFSLGGVR---DEAEIRGHRRTYVGA-MPGRIIQGLKKAKTKNPLILLDEIDKIGLKSSFRGDPASALLEVLDPE 550 (941) T ss_pred CCEEEEEEECCCE---EHHHCCCCCCCCCCC-CHHHHHHHHHHCCCCCCEEEEEEEEEECCCCCCCCCHHHHHHHHCCHH T ss_conf 8804999526722---031127864320346-725789998760415880686202200167886556378886412864 Q ss_pred -HHHCCCCC-CCEECCCCEE--EEEECCCCHHHHHHCCCCCCCCCCHHHHHHHHHHHCCHHHHCCCCEEEECCCCCHHHH Q ss_conf -75021779-9776125429--9994242145533036898821114889999987288788177682896288999999 Q gi|254780163|r 602 -YGILTDQS-GKKISFRNVI--LIMTTNAGALEMSKARIGFGSSRNDDADKEALRNFLSPEFLNRLDSIIPFFPLSSDII 677 (798) Q Consensus 602 -~G~ltd~~-Gr~vdf~n~i--ii~TsN~G~~~~~~~~~g~~~~~~~~~~~~~l~~~f~peflnRid~ii~F~~l~~~~~ 677 (798) T Consensus 551 QN~~F~DHYldvp~DLS~V~CyFi~TAN~----~---------------------d~IP~PLLDRM-EvI~lsGY~~~EK 604 (941) T TIGR00763 551 QNNAFSDHYLDVPFDLSKVLCYFIATANS----I---------------------DTIPRPLLDRM-EVIELSGYTEEEK 604 (941) T ss_pred HCCCCCCCCCCCCCCHHHHHHHEEECCCC----C---------------------CCCCCCCCCCE-EEEECCCCCHHHH T ss_conf 36042553002340042002100024475----7---------------------67772213740-2452388876789 Q ss_pred HHHHHHHHHHHHHHHHHC---CCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHC Q ss_conf 999999999999999866---9889998899999997189810153267999998623599999962 Q gi|254780163|r 678 RQVVHKFIMKLELQLQEK---GISFHFSEEVINWLVSHGYDVKMGARPLERIIKEHVKVPLADEILF 741 (798) Q Consensus 678 ~~i~~~~l~~l~~~l~~~---~i~l~~~~~~~~~l~~~~~~~~~GAR~l~r~i~~~i~~~la~~il~ 741 (798) T Consensus 605 ~~IA~~yLiP--~~~~~~GL~~~~l~~~d~al~~lI~-~YtREaGVRNL~r~I~~i~-RK~A~~~~~ 667 (941) T TIGR00763 605 LEIAKKYLIP--KALEDHGLKPDELKISDEALLLLIK-YYTREAGVRNLERQIEKIC-RKAAVKLVE 667 (941) T ss_pred HHHHHHCCHH--HHHHHHCCCCCCEEECHHHHHHHHH-HHHHHHCCHHHHHHHHHHH-HHHHHHHHH T ss_conf 9999854713--6798708881322126899999998-7513202133899999999-999999987

HHsearch alignment for GI: 254780163 and conserved domain: TIGR00763