>TIGR02289 M3_not_pepF oligoendopeptidase, M3 family; InterPro: IPR011976 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 family consists of probable oligoendopeptidases belonging to MEROPS peptidase family M3, subfamily M3B (clan MA(E)). The family is related to lactococcal PepF and group B streptococcal PepB (IPR004438 from INTERPRO) but in a distinct clade with considerable sequence differences not only to IPR004438 from INTERPRO but also to IPR011977 from INTERPRO. Likely substrates are small peptides and not whole proteins, as with PepF, but members are not characterised and the activity profile may differ. Several bacteria have both a member of this family and a member of the PepF family..

Probab=100.00 E-value=0 Score=562.45 Aligned_cols=538 Identities=18% Similarity=0.233 Sum_probs=447.9 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHH----HHHHHHHHHHH Q ss_conf 99999999999974233102334998999999999999999999999999864205799189999----99999999999 Q gi|254780915|r 59 CIEHESLAFKTRWEGNLAHATNQKNCHSLGAAIAEYERICELIGRIASYAMLSYNCNLSSPTIRK----FYTDINAKLAD 134 (626) Q Consensus 59 ~~~~~i~~~~~~~~~~l~~~~~~~~~~~l~~~l~~~e~i~~~l~rv~~ya~l~~s~dt~d~~~~~----~~~~~~~~~s~ 134 (626) T Consensus 3 ~~e~~~~~lle~~-------~~s~~~~E~~~~i~~~~~~~~~i~~~~~~~yI~~~~dtdde~f~~~~~~f~~~~~P~l~~ 75 (553) T TIGR02289 3 ELEKTLKELLEKF-------ISSKSVEEQEKIINEVNDVIDDIEEMITLAYIRHSVDTDDEEFYDEEEHFQDEIKPLLKR 75 (553) T ss_pred HHHHHHHHHHHHH-------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCHHHHHHHHHHHHHHHHHHHH T ss_conf 3489999998742-------064466899999999999999998767664440011587278999997566563678998 Q ss_pred HHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH Q ss_conf 99988741698871998999999846900111179999999742331716799876630010003677777764444332 Q gi|254780915|r 135 FEKVLIFFALEINTLDEALLEQSYAQDPLTLKYSAWIKNIRKIKKHLLSNDMECLLSDTSQVGREALKRFFCENIESLRF 214 (626) Q Consensus 135 ~~~~l~~~~~e~~~l~e~~l~~~~~~~~~l~~y~~~~~~l~~~~~~~l~~~~E~~l~~~~~~~~~~~~~~~~~~~~~~~~ 214 (626) T Consensus 76 y~~~~~---~~~~---espFr~~L~~----~~y~~l-~~~~~~~~klF~ek---~i~l~--~kE~~L~t~Y~~i~~~~~i 139 (553) T TIGR02289 76 YNTKFD---QKIV---ESPFREELDE----RFYELL-FKLIKNKLKLFSEK---NIPLL--QKENKLSTKYREIISNIKI 139 (553) T ss_pred HHHHHH---HHHH---CCCCHHHHHH----HHHHHH-HHHHHHHHHHCCCC---CCHHH--HCCHHHHHHHHHHHCCCEE T ss_conf 878998---7762---3877656875----222689-99999987606754---34123--0120454335455328702 Q ss_pred HHHCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHH---HHCCCCH Q ss_conf 2100347523321354188876799999999998650542169999998666788654278999889762---2225898 Q gi|254780915|r 215 KINDQKIPLTKAYKSFFDSDREVRKSAAKALSHTFNKSSHIFSFITNTLAKDEEIQDRWRKYEKIADSRH---LSNNVEP 291 (626) Q Consensus 215 ~~~~~~~~~~~~~~~l~~~dr~~Rk~a~~a~~~~~~~~~~~~a~il~~iv~~r~e~A~llGy~s~~~~~l---~~~~~~~ 291 (626) T Consensus 140 ~f~Ge~kTl~ql~~~L~~~~R~~RK~A~~a~~~~~~~~~~Eld~I~deLv~~R~~~A~~lGf~NY~dy~y~~~~RtDY~~ 219 (553) T TIGR02289 140 DFEGEEKTLSQLKPYLQDPDRSTRKKAWEARSEFFAEVEEELDRIYDELVEIRTKIAKNLGFENYVDYMYKLLNRTDYSA 219 (553) T ss_pred ECCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCH T ss_conf 11301332876256607987678999999999799867899987999999999999987040105899886416787898 Q ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCHHHHHHCC-CCCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999987630628999999999987088753123444025-6554-7779989999999986666328999999986 Q gi|254780915|r 292 YVIEALMQSVKNYYPKTSHRYYELKKKWLKLDTMYFWDRLAPL-PGTS-QDIIPFEVARDLVLQSYAKFSPQMSIIAEKF 369 (626) Q Consensus 292 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~lg~~~l~~wD~~~~~-~~~~-~~~~~~ee~~~~v~~~~~~~~~e~~~~~~~~ 369 (626) T Consensus 220 ~d~y~y~e~v~KyvvP~~~~~~~~~~~rLgi~~l~pwD~s~~~~~gn~L~P~~~~~~~~~~~~~my~~l~~~f~~~F~~m 299 (553) T TIGR02289 220 EDVYKYRESVLKYVVPLLTKLRKRKKKRLGIEKLRPWDESAVFLDGNVLKPFGNVDFLLEKAEKMYKELSLEFKEFFNFM 299 (553) T ss_pred HHHHHHHHHHHHHHCCHHHHHHHHHHHHCCCHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCHHHHHHHHHH T ss_conf 99999987665411425899889988605611114201576788678668866778999999999984087899999988 Q ss_pred HHCCCCCHHCCCCCCCCCCCCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHHHHHHHHCC-CCCCCCCCCHHHHHHHHHH Q ss_conf 424850201037998743547666777510103653324679999998458999996125-6877657800599988688 Q gi|254780915|r 370 FTHNWIDAPQYDGKGSGAFAHGTIPSVHPYILLNYLGKPQDVMTLAHELGHGIHFVLSSE-TQGILTNNSSLTLAETASI 448 (626) Q Consensus 370 ~~~~~iD~~~r~gKr~GA~~~~~~~~~~~~I~~N~~~~~~dv~TL~HE~GHa~H~~ls~~-~~~~~~~~~~~~~aE~~S~ 448 (626) T Consensus 300 ~~~nlLDL~~r~~Ka~GGyC~~Lp~~~~pFiFsNfngt~~Di~~l~HE~GHafh~Y~~~k~~~~~~Y~~~~~E~AEl~SM 379 (553) T TIGR02289 300 LEKNLLDLESRKGKAAGGYCTYLPKYKAPFIFSNFNGTSGDIDVLTHEAGHAFHVYESRKNDLLPEYRWPTYEAAELASM 379 (553) T ss_pred HHCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHH T ss_conf 75288343137898777431535566786078647888313678888656889766642467774346864679987764 Q ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCC Q ss_conf 89999999984138998999999999862069999999999999999972120168999899999999999986077634 Q gi|254780915|r 449 FGETLTFDSLLQAASSKEERKILLANKIEDMLNSIVRQISFYDFELKLHTERRSTGDIPTHRINEIWLETQKESLGPAFD 528 (626) Q Consensus 449 ~~E~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~q~~~~~fe~~~h~~~~~~~~~t~~~l~~~~~~~~~~~~g~~~~ 528 (626) T Consensus 380 smEll~~~~~~~Fy~d~~d~~k~k~~~l~~aL~fLp~~~~vD~FQHwvYeNP----~~TP~ER~~~y~~l~k~Y~~~~~~ 455 (553) T TIGR02289 380 SMELLSMPWMDLFYTDEEDLKKAKISHLKGALSFLPYGVIVDHFQHWVYENP----NHTPEERDEKYAELEKRYQPSEVY 455 (553) T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEECCC----CCCHHHHHHHHHHHHHHCCCCCCC T ss_conf 2888665667642079546758999999999999988888503124144488----888578999999999731787666 Q ss_pred C--CCCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCC-C Q ss_conf 5--887888500152541066752589999999999999999956733289999999832699997999997088989-9 Q gi|254780915|r 529 L--SDLEYGSFWMMVPHFIESSFYVYAYAFGNCLVNSLYDIYKSNTVDCFKEKYLNILRAGNSKHYSELLLPLNINLS-D 605 (626) Q Consensus 529 ~--~~~~~~~~w~~~~H~y~~~fY~y~Y~~~~~~a~~l~~~~~~~~~~~~~~~y~~~L~~Ggs~~~~el~k~~G~d~~-~ 605 (626) T Consensus 456 ~~~~~~e~gt~W~~q~Hif~~PFYYIeYtlAQigALq~~~~y~ed~~~-al~~Y~~~~~~G~S~s~~~l~~~agl~~~F~ 534 (553) T TIGR02289 456 EEDLELEKGTFWLRQLHIFEVPFYYIEYTLAQIGALQIYKKYKEDPEK-ALEDYKKLCSLGGSQSFLELYETAGLTFPFS 534 (553) T ss_pred CCCCCCCCCCEEEECCCEEECCCCHHHHHHHHHHHHHHHHHHHHCHHH-HHHHHHHHHHCCCCCCHHHHHHHHCCCCCCC T ss_conf 777320224110100443613730767789999999999875207889-9999999970789987899997627747876 Q ss_pred HHHHHHHHHHHHHHHHHHH Q ss_conf 8899999999999999986 Q gi|254780915|r 606 PNFWERGLQTVEKMIDDVE 624 (626) Q Consensus 606 ~~~~~~~~~~~~~~i~~~e 624 (626) T Consensus 535 ~~~ikei~~~v~~~l~~i~ 553 (553) T TIGR02289 535 EEIIKEIVSFVEKLLEEIE 553 (553) T ss_pred CCHHHHHHHHHHHHHHHCC T ss_conf 6436788999999997329

HHsearch alignment for GI: 254780915 and conserved domain: TIGR02289