HHsearch alignment for GI: 254780899 and conserved domain: TIGR00500

>TIGR00500 met_pdase_I methionine aminopeptidase, type I; InterPro: IPR002467 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 M24 (clan MG), subfamily M24A. Methionine aminopeptidase (3.4.11.18 from EC) (MAP) is responsible for the removal of the amino-terminal (initiator) methionine from nascent eukaryotic cytosolic and cytoplasmic prokaryotic proteins if the penultimate amino acid is small and uncharged. All MAP studied to date are monomeric proteins that require cobalt ions for activity. Two subfamilies of MAP enzymes are known to exist , . While being evolutionary related, they only share a limited amount of sequence similarity mostly clustered around the residues shown, in the Escherichia coli MAP , to be involved in cobalt-binding. The first family consists of enzymes from prokaryotes as well as eukaryotic MAP-1, while the second group (IPR002468 from INTERPRO) is made up of archaeal MAP and eukaryotic MAP-2. ; GO: 0004239 methionyl aminopeptidase activity, 0006508 proteolysis.
Probab=100.00  E-value=0  Score=500.99  Aligned_cols=249  Identities=45%  Similarity=0.772  Sum_probs=243.0

Q ss_pred             EEECCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCC-CCCCCCCCC------CCC---CCCCCCC
Q ss_conf             885399999999999999999999999975799889999999999999859-830344332------444---5532344
Q gi|254780899|r   12 INIYTPEELENIRSACNVVARCLDSLTPIIKPGTTTEEIDDFVLKFGMENN-AIPATLNYR------GYK---KSCCTSI   81 (273)
Q Consensus        12 ~~IKs~~EI~~~R~A~~i~~~~~~~~~~~i~~G~se~el~~~~~~~~~~~g-~~~~~~~~~------~f~---~~~~~s~   81 (273)
T Consensus         1 i~l~s~~Ei~kirkag~l~a~vl~~~~~~v~PGvST~eLD~i~~~~i~~~~hA~pAf~GY~PPfsdvgfPPft~~~C~S~   80 (265)
T TIGR00500         1 ISLKSKDEIEKIRKAGRLVAEVLEILEREVKPGVSTKELDRIAKDFIEKRGHAKPAFLGYYPPFSDVGFPPFTGSVCISV   80 (265)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEE
T ss_conf             95578989999999999999999999863689887899999999999847972353567877866687885556156321


Q ss_pred             CCCCCCCCCC-CCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCC-CCCCCHHHHHHHHHHHHHHHH-CCCCCCCCCHHHH
Q ss_conf             6421112122-220013405799787665300023111233344-443210367787765432211-0011212210489
Q gi|254780899|r   82 NHVICHGIPS-NKQLREGDIVNVDVTYVVNGWHGDSSRMYPVGK-IKRAAERILQVTYESLYKGIA-AVKLNANIEDIGK  158 (273)
Q Consensus        82 N~~~~H~~p~-d~~l~~GD~v~iD~g~~~~GY~~D~~RT~~~G~-~~~~~~~l~~~~~~a~~~~i~-~ikpG~~~~ei~~  158 (273)
T Consensus        81 Ne~V~HGiP~~~~vLKdGDivniD~g~~~~Gy~gD~a~Tf~~G~n~~~~~~KLl~~t~esl~~aI~P~~kpG~~~~~ig~  160 (265)
T TIGR00500        81 NEVVIHGIPDKKKVLKDGDIVNIDVGVIYDGYYGDTAITFLVGKNVSPEAEKLLEATEESLYKAIEPEIKPGKRIGEIGK  160 (265)
T ss_pred             CCEEEECCCCCCCEEECCCEEEEEEEEEECCEEECCCCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHH
T ss_conf             67888513884726513677875577886030211323134138778767889999999998522310147988778999


Q ss_pred             HHHHHHHHCCCEECCCCCCCCCCCCCCCCC-EEEECCCCCCC--CCCEECCCCEEEECCEEECCCCCCEECCCCCEEEEC
Q ss_conf             999999862960104752123322113540-36531564545--664511673788311144377762564688668833
Q gi|254780899|r  159 AIQRYAHSERYSVVEVFCGHGIGKSFHEKP-EILHFYDPLYP--SVGTFQEGMVFTIEPMLNVGGSSAKVLSDGWTAVTR  235 (273)
Q Consensus       159 a~~~~~~~~g~~~~~~~~GHgiGl~~hE~P-~i~~~~~~~~~--~~~~le~GMV~aiEP~i~~~~~~~~~~~d~w~~~~~  235 (273)
T Consensus       161 AI~~~~~~~GF~vvr~y~GHGiG~~~HeePn~ipnY~~~~~K~nsn~~lk~GMV~~iEPMv~~~~~e~~~~~DgWTV~T~  240 (265)
T TIGR00500       161 AIEKYAEEKGFSVVREYCGHGIGRKLHEEPNQIPNYYKKFTKKNSNVRLKEGMVFAIEPMVNTGTEEIVIAADGWTVKTK  240 (265)
T ss_pred             HHHHHHHHCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCCCEEEECCEEECCCCEEEECCCCCEEEEE
T ss_conf             99999876299786145276437744557353666667777667887106875788626121788225671688768700


Q ss_pred             CCCEEEEEEEEEEECCCCCEECCCC
Q ss_conf             7871678442189847985765267
Q gi|254780899|r  236 DRSLSAQYEHTIGITKAGCEIFTLS  260 (273)
Q Consensus       236 ~g~~~~~~Ed~vlVT~~G~E~LT~~  260 (273)
T Consensus       241 D~~~~AhfEHT~~iT~~g~~ILT~~  265 (265)
T TIGR00500       241 DGSLSAHFEHTIVITENGPEILTER  265 (265)
T ss_pred             CCCEEEEEEEEEEEECCEEEEECCC
T ss_conf             7742101578999988915780269