HHsearch alignment for GI: 254780654 and conserved domain: TIGR00978

>TIGR00978 asd_EA aspartate-semialdehyde dehydrogenase; InterPro: IPR005676 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 . Aspartate-semialdehyde dehydrogenase, the second enzyme in the aspartate pathway, converts aspartyl phosphate to aspartate-semialdehyde, the branch point intermediate between the lysine and threonine/methionine pathways. Based on sequence alignments, the aspartate-semialdehyde dehydrogenase family appears to have two distinct subgroups, one found in most bacteria (Gram-positve and Gram-negative), while the other is found primarily in organisms lacking peptidoglycan (archaea,fungi and some bacteria). Most studies have been performed on enzymes isolated from Gram-negative bacteria , , , . The N-terminal domain forms the active site and NADP-binding pocket, while C-terminal domain is primarily involved in hydrophobic intersubunit contacts. The catalytic mechanism involves the formation of a covalent thioester acyl-enzyme intermediate mediated through nucleophilic attack by an active site cysteine residue on the substrate aspartyl phosphate. Release of inorganic phosphate is followed by hydride transfer from NADPH to yield the product. The recently described archaeal structure suggests that the two subgroups of aspartate semi-aldehyde dehydrogenase share similar structures and have an identical catalytic mechanism, despite their relatively low sequence identity . Unlike the bacterial enzymes, the archaeal enzyme utilised both NAD and NADP as cofactor. This entry represents the subgroup of aspartate dehydrogenases found primarily in organisms lacking peptidoglycan. In addition to its role in aspartate metabolism, the enzyme from Sulfolobus solfataricus has been shown recently to exhibit RNase activity, suggesting that these enzymes may perform additional cellular functions .; GO: 0004073 aspartate-semialdehyde dehydrogenase activity, 0009086 methionine biosynthetic process, 0009088 threonine biosynthetic process.
Probab=99.04  E-value=3.9e-09  Score=80.27  Aligned_cols=260  Identities=22%  Similarity=0.279  Sum_probs=174.9

Q ss_pred             EEEEEEC-CCHHHHHHHHHHHHCCCC-CEEEEEECCCCCHHHHHHHHHHCCCCCCCCCEEEE-----ECCC-CCCCCCCC
Q ss_conf             1898856-686889999999968888-72899960688999999887514412556740898-----3653-00165654
Q gi|254780654|r    3 CKVAING-FGRIGRCILRAAVESRRD-DVRIVAINDLNSIETMAHLLRYDSVHGRFPGEVKI-----IGDT-IDVGLGPI   74 (333)
Q Consensus         3 ikIgING-fGRIGR~v~R~~~~~~~~-~i~ivaINd~~~~~~~~~Ll~yDS~hG~~~~~v~~-----~~~~-l~in~~~i   74 (333)
T Consensus         1 ~~VavLGaTG~VGq~f~~lL~~--HPr~Fe~~~v~AS------------~~saGk~Yge~~~W~~~~~g~~Pe~~~dl~i   66 (358)
T TIGR00978         1 VRVAVLGATGLVGQKFVKLLEK--HPRYFELAKVVAS------------ERSAGKRYGEVVKWREILSGDIPEEVRDLEI   66 (358)
T ss_pred             CEEEEEECCCHHHHHHHHHHHH--CCCEEEEEEEEEC------------CCCCCCCHHHHHHHCCCCCCCCCHHHCCCEE
T ss_conf             9689970655468999999752--6981228898836------------8655767445430121236858432347654


Q ss_pred             CCCCCCCCC--CCCCCCCCEEEEECCCCCC-CCCCCHHH-HCCCCEEEEECCC----CCCCEEEEEECCCCCCCC-----
Q ss_conf             211012333--3344656327860664333-21220011-0584234330367----887348984055321222-----
Q gi|254780654|r   75 QVTSIRDPQ--DLPWGDVDVAMECTGFFVT-QEKASLHL-SNGSQRVLVSAPC----KGVKKTIVYGVNHQSLNK-----  141 (333)
Q Consensus        75 ~i~~~~~p~--~i~W~~vDiViEcTG~f~~-~~~~~~HL-~~GakkVIiSaP~----kd~~~tiV~GvN~~~~~~-----  141 (333)
T Consensus        67 ---~~~~p~ri~~d~~dVD~vfSA--Lp~~~A~~~E~~la~~G--~~VfSNAs~~RmdpdVPli~PEVN~~hL~l~~~Q~  139 (358)
T TIGR00978        67 ---VETEPVRIAEDHKDVDIVFSA--LPSEVAEEVEPKLAEEG--IIVFSNASAHRMDPDVPLIVPEVNSDHLELLKVQK  139 (358)
T ss_pred             ---ECCCCCEEEECCCCCEEEEEC--CCHHHHHHHHHHHHHCC--CEEEECCCCCCCCCCCCEEECCCCHHHHHHHHHCC
T ss_conf             ---134743356617982699814--99799999999998569--88987684778888867783335614799998540


Q ss_pred             C-----CEEECCCCCCHHHHHHHHHHHHHCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCC--CCCCCCCCCCCCCH----
Q ss_conf             2-----103305764102346688875412102322100113453222355665453000--11236564645311----
Q gi|254780654|r  142 E-----DKVVSNASCTTNCLVPVVHVLDKMFGIEKGYMTTVHSYTGDQHVLDAGHSDLYR--SRAAAISMVPTSTG----  210 (333)
Q Consensus       142 ~-----~~IiS~aSCTtn~laPvlk~l~~~~gI~~g~~TTiH~~t~~Q~l~D~~~~d~Rr--~Raa~~niIPt~Tg----  210 (333)
T Consensus       140 ~RrgW~G~ivtNPNC~t~~lTl~LkPl~d~~~~~~V~v~TmQAvSG-------A--GY~GVp~~~I~dN~iP~I~GEE~K  210 (358)
T TIGR00978       140 ERRGWKGFIVTNPNCTTAGLTLALKPLIDAFGIKKVIVTTMQAVSG-------A--GYPGVPSMDILDNVIPHIGGEEEK  210 (358)
T ss_pred             CCCCCCCEEEECCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCHHC-------C--CCCCCCHHHHHCCCCCCCCCHHHH
T ss_conf             0168861799576167887761013464305845699987200014-------8--888875455533616550633589


Q ss_pred             HHHHHHHHH-HHCCC--------CCEEEEEECCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCEEEEE-CCCEE
Q ss_conf             245677776-20178--------710434312335310112343320122067889999874100004857422-58735
Q gi|254780654|r  211 AAKAVELVL-PNLKG--------KLDGSSIRVPTPNVSMVDLKCVTSRDVNIDEINATMKYFAEGDLKNILGYV-TLPLV  280 (333)
Q Consensus       211 aa~ai~~vl-P~l~g--------kl~g~a~RVPt~~vS~vDlt~~l~k~~t~e~in~~~~~as~~~~~~il~~~-~~~lV  280 (333)
T Consensus       211 Ie~E~~KilsGkl~~g~~~PA~~~~~at~~RVPV~~GHt~~v~v~~~~~~d~~EI~~~~~~f~~~Pq~l~lP~~P~~p~~  290 (358)
T TIGR00978       211 IERETLKILSGKLENGKIEPAEFEVSATTTRVPVLDGHTESVHVEFDKKFDIEEIREALKSFRGLPQKLGLPSAPEKPII  290 (358)
T ss_pred             HHHHHHHHHCCCCCCCEEEEECCEEEEEEEECCCCCCCEEEEEEEECCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCEE
T ss_conf             87621333344003884642044068998744411164699999866877989999999840677642577988695379


Q ss_pred             EECCCCCCCCEE
Q ss_conf             443488786216
Q gi|254780654|r  281 SVDFNHTSYSSI  292 (333)
Q Consensus       281 S~D~ig~~~s~i  292 (333)
T Consensus       291 ~~d~edrPQPrl  302 (358)
T TIGR00978       291 VRDEEDRPQPRL  302 (358)
T ss_pred             EECCCCCCCCHH
T ss_conf             875886785044