HHsearch alignment for GI: 254780439 and conserved domain: TIGR01205

>TIGR01205 D_ala_D_alaTIGR D-alanine--D-alanine ligase; InterPro: IPR005905 D-alanine--D-alanine ligase (6.3.2.4 from EC) is a bacterial enzyme involved in cell-wall biosynthesis. It participates in forming UDP-N-acetylmuramoyl pentapeptide, the peptidoglycan precursor. These enzymes are proteins of 300 to 360 amino acids containing many conserved regions. The N-terminal Gly-rich region could be involved in ATP-binding. This family of enzymes represent chromosomal versions of species not specifically resistant to glycopeptide antibiotics such as vancomycin. The mechanism of glycopeptide antibiotic resistance involves the production of D-alanine-D-lactate (VanA and VanB families) or D-alanine-D-serine (VanC). This model attempts to exclude the VanA/VanB and VanC subfamilies while capturing most other D-Ala-D-Ala ligases above the trusted cut-off. However, changes in small numbers of amino acids, as demonstrated crystallographically, can alter specificity. In chlamydial species, this enzyme is found as a fusion protein with UDP-N-acetylmuramate--alanine ligase. ; GO: 0008716 D-alanine-D-alanine ligase activity, 0009252 peptidoglycan biosynthetic process, 0005737 cytoplasm.
Probab=99.74  E-value=1e-14  Score=134.29  Aligned_cols=295  Identities=21%  Similarity=0.341  Sum_probs=239.7

Q ss_pred             CCCCCCCHHHHHH---HHHHHHC--------CCCEEEEECCCCCCCCCCCCCCEEEEEECCHHHHHHHHHHHCC------
Q ss_conf             1476653189999---9999965--------9806996068652112324586379841678899999987485------
Q gi|254780439|r  632 GQGIEFDYCCCHA---SFSLKEA--------GFETIMINCNPETVSTDYDIADRLYFESLTEEDILEILRVEQQ------  694 (1162)
Q Consensus       632 GqgiEFDy~~v~a---~~aLr~~--------G~~tImIN~NPETVSTDyd~sDrLYFEplt~E~V~~I~~~E~p------  694 (1162)
T Consensus         8 G~S~EhEiSL~Sa~~v~~aL~~~~~FIF~deg~~v~~~~~~~~g~---w~~~~~~-~~~L~~~~~~~~~~~~~~~~~~~~   83 (375)
T TIGR01205         8 GKSAEHEISLVSAQAVLKALRSLLEFIFLDEGYDVYPVDIDKQGS---WVFSDAK-TEALVYKDLLQKLLEQGGPINLSS   83 (375)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCEEEEEEEECCCCC---EECCCCC-CCCCCCCCHHHHHHHCCCCEECCC
T ss_conf             876505675899999999865208766531664899986226773---3003456-555211100467763589740146


Q ss_pred             --------------------CCCCCEEEEECCCH-HHH--HHHHHHHHCCCEEEECCCCHHHHCCCHHHHHHHHHHCCCC
Q ss_conf             --------------------67822799844512-466--8988888759838612752033102867899988870986
Q gi|254780439|r  695 --------------------KGELVGIIVQFGGQ-TPL--KLSKILEKNQIPILGTQPDSIDLAEDRDRFQKLLMELDLN  751 (1162)
Q Consensus       695 --------------------~g~~~~vi~q~gGq-t~~--~la~~L~~~gv~ilGts~~~Id~aEDR~~F~~ll~~l~i~  751 (1162)
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~D~vF~~LHG~~~GEDGtiQGlLe~~gIPY~Gsgv~aSA~smDK~~tK~~~~~~Glp  163 (375)
T TIGR01205        84 LAQVSLLGESFLLEAESAEALEEIDVVFPVLHGPPYGEDGTIQGLLELLGIPYTGSGVLASALSMDKLLTKLLLKSLGLP  163 (375)
T ss_pred             CCCCCCCCCCCCCCCCCCHHHCCCCEEEEEECCCCCCCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             67410035566666445302047988998121856685552899999707870374789999874289999999875797


Q ss_pred             CCCCCCC--CCHHHHH-------HHHHHCCCCEEEECCCCCCCCCCEEECCHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             6854211--2156655-------565536971675134444565412554899999999975210132211112233333
Q gi|254780439|r  752 QPRNGIS--HSVEHAR-------LIACEIGFPLLIRPSYVLGGRAMQIVYSENMLQDYLLDTLPGLVSEEIKRQYPNDKT  822 (1162)
Q Consensus       752 ~p~~~~a--~s~eea~-------~~a~~iGyPVLVRPSyVLGG~~M~Iv~~~~eL~~yl~~a~~~~~~~~~~~~~~~~~~  822 (1162)
T Consensus       164 ~~~y~~l~~~~~~~~~~~~~~~~~~~~~lg~P~~VKPa~~GSSvG~~~V~~~~eL~~a~~~Af~----------------  227 (375)
T TIGR01205       164 TPDYAVLRRKERSSEDEAECENVAVLEKLGFPVFVKPAREGSSVGISKVKSEEELEAALDEAFK----------------  227 (375)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCEEEEEEECCHHHHHHHHHHHHC----------------
T ss_conf             4470467504544561346899999983689789973467775778984677899999998615----------------


Q ss_pred             CCCCCCCCCCCEEEEEE---CCCCEEEEEEEEEECCCEEEEEEECCCCHHCC----------CCCC-EEEEECCC-CCCH
Q ss_conf             33345577774567022---01201001010230798499985201102152----------4576-27981686-6899
Q gi|254780439|r  823 GQINTLLGTHPLLFDSY---LSDAMEIDVDALCQNDQVIVVGIIEHIEEAGI----------HSGD-SACSLPSR-SLSQ  887 (1162)
Q Consensus       823 ~~~~~vs~~~pVlIdkf---l~~a~EiEVDai~Dg~~v~I~gimEHiE~aGV----------HSGD-S~~v~Ppq-sLs~  887 (1162)
T Consensus       228 -------~d~~v~vE~~~~~i~-grEl~v~~L~~~~~lp~~~~~~~~~~~g~~~FYDY~~KY~~~~g~~~~~pa~~~L~~  299 (375)
T TIGR01205       228 -------YDERVIVEEFKQRIK-GRELEVSILGNEEALPIISIVPEIEPDGGSDFYDYEAKYLDGDGTEYVIPAPAGLDE  299 (375)
T ss_pred             -------CCCEEEEEECCCCCC-CCEEEEEEEECCCCCEEEECCCCCCCCCCCEECCHHHCCCCCCCCEEEECCCCCCCH
T ss_conf             -------596599981114789-852689887079743245406753567676000021142778873265156567888


Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCEEEEEEC-C-CEEEEEEECCCCCC----CHHHHHHHHCCCHHHHHHHHHC
Q ss_conf             999999999999987413357624788512-8-85999852444456----3045677739889999999985
Q gi|254780439|r  888 QLKDELISQTKALAGALNVIGLINVQYAIK-D-GKIYILEVNPRASR----TVPFIAKAIGFPVAKVAARIIA  954 (1162)
Q Consensus       888 ~~~~~i~~~t~~ia~~L~v~G~~NIQfa~k-d-~~iYVIEvNpRaSR----tvPfvSKatG~pl~~iAt~v~l  954 (1162)
T Consensus       300 ~~~~~i~~~a~~ay~~~~~~G~~R~DFf~~~~~G~~yLnEiNT~PGmT~~Sl~P~~~~~~G~~f~~Lv~~~~~  372 (375)
T TIGR01205       300 ELEEKIKELALKAYKALGCRGLARVDFFLDKETGEIYLNEINTIPGMTAISLFPKAAAAAGLEFEQLVERILE  372 (375)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCEEEEEEECCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             9999999999999984088744899899872888699998768888720126999999718887899999998