HHsearch alignment for GI: 254780282 and conserved domain: TIGR03339

>TIGR03339 phn_lysR aminoethylphosphonate catabolism associated LysR family transcriptional regulator. This group of sequences represents a number of related clades with numerous examples of members adjacent to operons for the degradation of 2-aminoethylphosphonate (AEP) in Pseudomonas, Ralstonia, Bordetella and Burkholderia species. These are transcriptional regulators of the LysR family which contain a helix-turn-helix (HTH) domain (pfam00126) and a periplasmic substrate-binding protein-like domain (pfam03466).
Probab=100.00  E-value=0  Score=369.77  Aligned_cols=275  Identities=24%  Similarity=0.317  Sum_probs=241.7

Q ss_pred             HHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCEEEEECCCCEEEEECCCCCCCCCCCCCCCCCHHHHHCCC
Q ss_conf             99999999982768999988289978999999999999588217976994685001343322222222221012210012
Q gi|254780282|r    7 KLRVFYVVARSGSFTHAAEQLHLSQSSISRQISGLETEVGIKLFYRHARGLTLTEQGSKLHRVTSEVYHKLETTQIELQE   86 (299)
Q Consensus         7 ~L~~f~~v~~~gs~s~AA~~L~itq~avS~~i~~LE~~lg~~Lf~R~~~~~~lT~~G~~l~~~a~~~l~~~~~~~~~~~~   86 (299)
T Consensus         1 qL~~F~~va~~gs~s~AA~~L~isQpavS~~I~~LE~~lg~~Lf~R~~r~v~lT~~G~~l~~~a~~il~~~~~~~~~~~~   80 (279)
T TIGR03339         1 QLKAFHAVARCGSFTRAAERLGLSQPTVTDQVRKLEERYGVELFHRNGRRLELTDAGHRLLPIVERLFQQEAEAEFLLRE   80 (279)
T ss_pred             CHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCEEEEECCCCEEECCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             97899999980999999999888889999999999998598859998982589948889999999999999999999985


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCC---CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             232222223332111000000000135667542000122222222---22222222222234565432111122345554
Q gi|254780282|r   87 SSVKPSGKLRIATTIDLGQNLLQGNLKEFLLLYPDIQIQLILDNK---DIDISMDYADCAIRLRKPIQSSSLIQRKLVTI  163 (299)
Q Consensus        87 ~~~~~~g~i~I~~~~~~~~~~l~~~l~~f~~~~P~i~i~i~~~~~---~~~l~~~~~Di~i~~~~~~~~~~l~~~~l~~~  163 (299)
T Consensus        81 ~~~~~~g~l~ig~~---~~~~l~~~l~~f~~~~P~v~i~i~~~~~~~~~~~L~~~~~Di~i~~-~~~~~~~~~~~~l~~~  156 (279)
T TIGR03339        81 SGALREGSLRIAAT---APYYVLDLVARFRQRYPGIEVSVRIGNSQEVLQALQSYRVDVAVSS-EVVDDPRLDRVVLGND  156 (279)
T ss_pred             CCCCCCCEEEECCC---HHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHCCCEEEEEEC-CCCCCCCEEEEEEECC
T ss_conf             02787451686175---1778999999999858986057895580877754025965899972-7889998399994044


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCEEEECCCCHHHHHHHHHCCEEE
Q ss_conf             33211234432111222222110001123566433211000235665202234321211453242001356787384233
Q gi|254780282|r  164 HMHAYAAPHYLKNCREPLSIQELDKHNLITFGDLIPKCMEDFNWLATVDRPIGEPRISCLQVNSYLSIMQYCVLGSGIAL  243 (299)
Q Consensus       164 ~~~~v~~~~~~~~~~~~~~~~dL~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~v~~g~Gia~  243 (299)
T Consensus       157 ~~~~~~~~~~~la~~~~i~~~~l~~~~~i~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~G~Giai  232 (279)
T TIGR03339       157 PLVAVVHRQHPLAERESVTLEELAGQPLLMREPGSVTR----QTTEEALAAAGVAPRPALEIGSREAIREAVLAGLGVSV  232 (279)
T ss_pred             CEEEEEECCCHHHCCCCCCHHHHCCCCEEEECCCCCHH----HHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHCCEEEE
T ss_conf             48999918863323999999997699989828998399----99999999779987536778969999999997993897


Q ss_pred             EEHHHHCCCCCEEEECCCCCCCCCEEEEEECCCCCCCHHHHHHHHH
Q ss_conf             1177760199846617766676600899934877888899999999
Q gi|254780282|r  244 LPDYIVKDNPNLVRIMEDVITPSFTVYFCYPEALKNTGKLKAFRNF  289 (299)
Q Consensus       244 lp~~~~~~~~~lv~i~~~~~~~~~~~~lv~~~~~~~~~~~~~f~d~  289 (299)
T Consensus       233 lP~~~v~~~~~l~~~pl~~~~~~~~~~l~~~~~r~~sp~~~aFie~  278 (279)
T TIGR03339       233 VSAAEVGRDPRLRVLPIVGAEPTMDEYLYCLKERRGARLIAAFLEL  278 (279)
T ss_pred             EEHHHHHHCCCEEEEECCCCCCCCEEEEEEECCCCCCHHHHHHHHH
T ss_conf             1489961098989998988898627999998998689999999965