HHsearch alignment for GI: 254780942 and conserved domain: TIGR00965

>TIGR00965 dapD 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; InterPro: IPR005664 Bacteria, plants and fungi metabolise aspartic acid to produce four amino acids - lysine, threonine, methionine and isoleucine - in a series of reactions known as the aspartate pathway. Additionally, several important metabolic intermediates are produced by these reactions, such as diaminopimelic acid, an essential component of bacterial cell wall biosynthesis, and dipicolinic acid, which is involved in sporulation in Gram-positive bacteria. Members of the animal kingdom do not posses this pathway and must therefore acquire these essential amino acids through their diet. Research into improving the metabolic flux through this pathway has the potential to increase the yield of the essential amino acids in important crops, thus improving their nutritional value. Additionally, since the enzymes are not present in animals, inhibitors of them are promising targets for the development of novel antibiotics and herbicides. For more information see . The lysine/diaminopimelic acid branch of the aspartate pathway produces the essential amino acid lysine via the intermediate meso-diaminopimelic acid (meso-DAP), which is also a vital cell wall component in Gram-negative bacteria . The production of dihydropicolinate from aspartate-semialdehyde controls flux into the lysine/diaminopimelic acid pathway. Three variants of this pathway exist, differing in how tetrahydropicolinate (formed by reduction of dihydropicolinate) is metabolised to meso-DAP. One variant, the most commonly found one in archaea and bacteria, uses primarily succinyl intermediates, while a second variant, found only in Bacillus, utilises primarily acetyl intermediates. In the third variant, found in some Gram-positive bacteria, a dehydrogenase converts tetrahydropicolinate directly to meso-DAP. In all variants meso-DAP is subsequently converted to lysine by a decarboxylase, or, in Gram-negative bacteria, assimilated into the cell wall. Evidence exists that a fourth, currently unknown, variant of this pathway may function in plants . 2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase (also known as tetrahydrodipicolinate N-succinyltransferase or DapD) is part of the succinyl route of of lysine/DAP biosynthesis. The DapD protein is a homotrimer is a trimeric enzyme with each monomer composed of three domain: an N-terminal helical domain, a distinctive left-handed parallel beta-helix (LBH) domain, and a predominantly beta C-terminal domain , . The LBH structure is encoded by an imperfect tandem-repeated hexapeptide sequence. Each trimer contains three independent active sites, always occuring at the boundary of two subunits, and formed by residues from one N-terminal domain, one C-terminal domain and two adjacent LBH domains.; GO: 0016757 transferase activity transferring glycosyl groups, 0009089 lysine biosynthetic process via diaminopimelate.
Probab=99.05  E-value=6e-10  Score=75.04  Aligned_cols=120  Identities=23%  Similarity=0.356  Sum_probs=85.3

Q ss_pred             CCCCEECCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCEEEEECCCCCCCCCCCCCCC
Q ss_conf             78410012232234420002111631343321211121002134432000002586443202310211247854487455
Q gi|254780942|r  272 PDTVIEPHVFFGCGVSIENYVQIRAFSYLEGVHIGKKTIIGPFARIRQETTIEKNVRIGNFCEVKKATIKEGSKINHLSY  351 (442)
Q Consensus       272 ~~~~I~~~~~Ig~~~~Ig~~~~I~~~~~i~~~~Ig~~~~Ig~~~~i~~~s~i~~~~~Ig~~~ei~~s~i~~g~~i~~~~~  351 (442)
T Consensus       102 ~g~R~VPgA~vR~G~fiAkNvVlMPSyvNIGAYvDEGtMvDTWATvGSCAQIGKNvHlSGG~------------------  163 (275)
T TIGR00965       102 AGFRKVPGAIVRRGTFIAKNVVLMPSYVNIGAYVDEGTMVDTWATVGSCAQIGKNVHLSGGV------------------  163 (275)
T ss_pred             CCCCCCCHHHEECCCEEEEEEEECCCEEECCCEEECCCEECCHHHHCCHHHHCCCEEEECCC------------------
T ss_conf             66654874360057357752377555210136751686010012230032206625751783------------------


Q ss_pred             CCCCEECCCCEECCCEEECCCCCCCCCCCEECCCCEECCCCEEECCEEECCCCEECCC---------------CEECCCC
Q ss_conf             5663988998997980883445775456298788798869989378398899899778---------------3576643
Q gi|254780942|r  352 VGDSVVGKNVNIGAGTITCNYDGTHKYKTHINENAFIGSNSSLIAPITIGQGTYVASG---------------SIITQDT  416 (442)
Q Consensus       352 igd~~iG~~~~ig~g~i~~n~~g~~~~~~~ig~~~~iG~~~~i~~gv~ig~~~~i~ag---------------~~v~~dv  416 (442)
T Consensus       164 ----------GIG-GV----LEPLQA~P~IIEDNCFiGARSEi~EGVIVEEGSVISMGVfIG~STkI~~R~TGEI~~GRv  228 (275)
T TIGR00965       164 ----------GIG-GV----LEPLQAKPTIIEDNCFIGARSEIVEGVIVEEGSVISMGVFIGQSTKIVDRDTGEIIYGRV  228 (275)
T ss_pred             ----------CCC-CC----CCCCCCCCEEEECCCEECCCEEEEEEEEECCCCEEEEEEEECCCCEEEECCCCEEEECCC
T ss_conf             ----------316-52----463357875882476004611356207971685888406855601688536671765513


Q ss_pred             CCCCEEEE
Q ss_conf             69868981
Q gi|254780942|r  417 PENSLVFA  424 (442)
Q Consensus       417 ~~~~~v~~  424 (442)
T Consensus       229 PA~SVVVs  236 (275)
T TIGR00965       229 PAGSVVVS  236 (275)
T ss_pred             CCEEEEEC
T ss_conf             56027971