HHsearch alignment for GI: 254780453 and conserved domain: cd04727

>cd04727 pdxS PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some metazoa. Together with PdxT, PdxS forms the PLP synthase, a heteromeric glutamine amidotransferase (GATase), whereby PdxT produces ammonia from glutamine and PdxS combines ammonia with five- and three-carbon phosphosugars to form PLP. PLP is the biologically active form of vitamin B6, an essential cofactor in many biochemical processes. PdxS subunits form two hexameric rings.
Probab=95.91  E-value=0.016  Score=36.78  Aligned_cols=181  Identities=22%  Similarity=0.337  Sum_probs=93.6

Q ss_pred             EEEECCCHHHHHHHHHHHCCCC-CEE-EECHHHHHCCC------HHHHHHHHHH-CHHHHHHHHHCCHHHHHHHHHHHHC
Q ss_conf             9960799899999999738852-289-98689984255------8999999851-5466787764042467898776521
Q gi|254780453|r   17 VGLDLPTVKEAERIVSILSDTV-SFY-KIGYHLSFSGG------LELARDLISD-GKSVFLDMKLFDIGSSVTAAIEHIA   87 (238)
Q Consensus        17 vALD~~~~~e~l~l~~~l~~~i-~~i-Kig~~l~~~~G------~~~i~~l~k~-~~~If~D~K~~DIpnTv~~~v~~~~   87 (238)
T Consensus        11 VIMDV~n~eQA-~IAE~AGAvaVMaLervPadiR~~GGVaRMsdp~~I~eI~~aVsIPVMAK---~RIGHfvEAqiL--e   84 (283)
T cd04727          11 VIMDVTNAEQA-RIAEEAGAVAVMALERVPADIRAAGGVARMADPKMIKEIMDAVSIPVMAK---VRIGHFVEAQIL--E   84 (283)
T ss_pred             EEEEECCHHHH-HHHHHCCCEEEEEECCCCHHHHHCCCCCCCCCHHHHHHHHHHCCCCCEEE---ECCCHHHHHHHH--H
T ss_conf             78883789999-99987175378642348787874479001589899999998522200234---202217999999--9


Q ss_pred             CCCCEEEE-----------------------EEC---CCHHHHHHHHHHCCCCCCEEEEEEECCCCHHHHHHHHCCCCHH
Q ss_conf             56750899-----------------------724---6046777765302355310466641477768876520121048
Q gi|254780453|r   88 NMGVAMLT-----------------------VHA---YPQTMRSAVSVVRDTGICLLAVTVLTSMDDFDLRESGYEKDIS  141 (238)
Q Consensus        88 ~~g~d~iT-----------------------vH~---~~~~l~~~~~~~~~~~~~il~Vt~LTS~~~~~l~~~g~~~~~~  141 (238)
T Consensus        85 algVD~IDESEVLTpAD~~~HI~K~~F~vPFVCGarnLgEAlRRI~EGAaMIRTKG---------------Ea-GTGnVv  148 (283)
T cd04727          85 ALGVDMIDESEVLTPADEEHHIDKHKFKVPFVCGARNLGEALRRISEGAAMIRTKG---------------EA-GTGNVV  148 (283)
T ss_pred             HHCCCCCCCCCCCCCCCHHCCCCCCCCCCCEEECCCCCHHHHHHHHCCHHCCCCCC---------------CC-CCCCHH
T ss_conf             95888235223577775320443103777744068981899988862120167779---------------68-856699


Q ss_pred             HHHHH------------------HHHHHHHCCCCCCCCCCHH-HHHHHHHHCCCCEEEEECCCCCCCCCCCCCEECCHHH
Q ss_conf             87654------------------4542110244311134103-4455442024403551011357865798400369899
Q gi|254780453|r  142 DMVRM------------------RAVQARDIGMGGIVCSPQE-VRMVREIVGHNMVIVTPGIRMLGSATDGQKRFATPET  202 (238)
Q Consensus       142 ~~v~~------------------~a~~a~~~g~~GvV~s~~e-i~~ir~~~~~~~~~itPGI~~~~~~~~dq~r~~tp~~  202 (238)
T Consensus       149 eAVrH~R~i~~eI~~l~~~~~~el~~~Ak~~~a------p~elv~~v~~~-gr--L---PVvnFaAGG------iATPAD  210 (283)
T cd04727         149 EAVRHMRAVNGEIRKLQSMSEEELYAVAKEIQA------PYELVKETAKL-GR--L---PVVNFAAGG------VATPAD  210 (283)
T ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCC------CHHHHHHHHHH-CC--C---CEEEECCCC------CCCHHH
T ss_conf             999999999999999977999999999998677------58999999997-89--7---636642678------588377


Q ss_pred             H---HHCCCCEEEECCHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf             9---9659989999853308888899999999986651
Q gi|254780453|r  203 A---LKYGASHIVVSRPIVRAADPVSAAQEFQRAISLI  237 (238)
Q Consensus       203 A---i~~GaD~iVVGR~I~~a~dP~~aa~~i~~~i~~~  237 (238)
T Consensus       211 AALmMqLG~dGVFVGSGIFKS~dP~krA~AIV~Atthy  248 (283)
T cd04727         211 AALMMQLGADGVFVGSGIFKSENPEKRARAIVEAVTHY  248 (283)
T ss_pred             HHHHHHCCCCEEEECCCCCCCCCHHHHHHHHHHHHHCC
T ss_conf             99999728987887765457899999999999998465