HHsearch alignment for GI: 254780771 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=98.87 E-value=3.7e-09 Score=68.48 Aligned_cols=199 Identities=22% Similarity=0.169 Sum_probs=97.8
Q ss_pred EECCCCCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEHHHCCCCCCEEEECCCCCCCCHHCCCCC
Q ss_conf 00123201122101211122211235576543331001565323344200001100112320331122100000002332
Q gi|254780771|r 87 LLSDKPEVSFAIAGSILYPQAMHMEASSFEGGISPQAFLGEDVKIEDGVVIAPMAVVYPGVEIGRKTYVGPGSVIGAGVR 166 (347)
Q Consensus 87 Iiv~nP~~afA~i~~~l~~~~~~~~~~~~~~~I~~~a~I~~~a~I~~~v~I~~~~~I~~~v~IG~~~~I~~~~~I~~~~~ 166 (347)
T Consensus 74 ~~~~~~~~yfDKV~~KFpAD~d~~~Fk~~g~R~VPgA~vR~G~fiAkNvVlMPS-yvNIGAYvDEGtMvDTWATvGSCAQ 152 (275)
T TIGR00965 74 VLNDAVNKYFDKVPTKFPADYDENEFKEAGFRKVPGAIVRRGTFIAKNVVLMPS-YVNIGAYVDEGTMVDTWATVGSCAQ 152 (275)
T ss_pred HHHCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCHHHEECCCEEEEEEEECCC-EEECCCEEECCCEECCHHHHCCHHH
T ss_conf 110675320125788788876567886466654874360057357752377555-2101367516860100122300322
Q ss_pred CCCCCCCCEEEEEEEEEEEECCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 10023322023310024420100000232134454335566653110444320000244445444433222222111112
Q gi|254780771|r 167 IGRNCSIGAGSSIYSSLIGNSVILHSGVRIGNDGFGYARGVSDIHKIVHIGRVIIQDKVEIGANSAIDRGTIDDTIIGEN 246 (347)
Q Consensus 167 IG~~~~I~~~~~I~~~iIG~~~~I~~~~vIG~~GFgf~~~~~~~~~~~~~G~v~Ig~~v~IG~n~tIdrg~~~~t~Ig~~ 246 (347)
T Consensus 153 IGKNvHlSG-----------------G~GIGGV---LEPLQA--------~P~IIEDNCFiGARSEi------------- 191 (275)
T TIGR00965 153 IGKNVHLSG-----------------GVGIGGV---LEPLQA--------KPTIIEDNCFIGARSEI------------- 191 (275)
T ss_pred HCCCEEEEC-----------------CCCCCCC---CCCCCC--------CCEEEECCCEECCCEEE-------------
T ss_conf 066257517-----------------8331652---463357--------87588247600461135-------------
Q ss_pred CCCCCCCCCCCCCCCCCCEEEEEEEEEECCCEECCCCEEEECCEEECCEEECCCCEECCCCEEEEEECCCCEEEEECCHH
Q ss_conf 22111234444650357718865556503636569729730687837859888889862532600007987899824175
Q gi|254780771|r 247 TKIDNQVQIGHNVHIGCGCIIVSQVGIAGSTYIGDNVLIGGQCGIAGYLKIGDNVQIASKSGVLKDIPAGQQYGGMPARP 326 (347)
Q Consensus 247 ~~id~~v~i~hn~~iG~~~~~~~~~~~~g~~~ig~~~~ig~~~~i~~~v~ig~~~~i~a~s~v~~~v~~~~~~~G~pa~~ 326 (347)
T Consensus 192 ---------~EGVIVEEGSVISMGVfIG~STkI~~R~T---GE-I~~-GRvPA~SVVVsG~lPsp~~G~~sLYC~VIVK~ 257 (275)
T TIGR00965 192 ---------VEGVIVEEGSVISMGVFIGQSTKIVDRDT---GE-IIY-GRVPAGSVVVSGILPSPKDGKYSLYCAVIVKK 257 (275)
T ss_pred ---------EEEEEECCCCEEEEEEEECCCCEEEECCC---CE-EEE-CCCCCEEEEECCCCCCCCCCCCCCEEEEEEEC
T ss_conf ---------62079716858884068556016885366---71-765-51356027971778875567964148999871
Q ss_pred HHHHHHHHHHHCCHH
Q ss_conf 888978678622826
Q gi|254780771|r 327 IGEYLRHMVMLSKPS 341 (347)
Q Consensus 327 ~~~~~~~~~~~~~l~ 341 (347)
T Consensus 258 VD~~TRgKvsiN~LL 272 (275)
T TIGR00965 258 VDAKTRGKVSINELL 272 (275)
T ss_pred CCCCCCCCCCHHHHH
T ss_conf 167667520156552