HHsearch alignment for GI: 254780314 and conserved domain: cd00342

>cd00342 gram_neg_porins Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers are stabilized by hytrophillic clamping of Loop L2. Loop 3 bends into the pore, creating an elliptical constriction of about 7 x 11A, large enough to allow passage of a glucose molecule without steric hindrance. Removal of the C-terminal residue (usuallly F) destabilizes the trimer and removal of the 16th beta-sheet abolishes trimerization. Unlike typical membrane proteins, porins lack long hydrophobic stretches. Short turns are found at the smooth, periplasmic end, longer irregular loops are found at the rough, extracellular end. C-terminal residue forms salt bridge with N-terminus.
Probab=90.17  E-value=1.5  Score=23.36  Aligned_cols=187  Identities=20%  Similarity=0.219  Sum_probs=100.1

Q ss_pred             CCHHHHEEEHHH-----EEECCEEEE----CCCCCCCCCCE-----EEECCCCCC-CCCCEEEEEE-ECCCEEEEEEHHH
Q ss_conf             112520001100-----000122200----24444555510-----231122244-4332268998-2575451033032
Q gi|254780314|r  134 LSVEELSLSMKG-----ARLGYYKSW----SDEVNPVYSPT-----TLYNDARGL-DKMMSLSYRH-SFGLLKAGLSTDL  197 (351)
Q Consensus       134 l~ldeayLdi~G-----fRaG~FySW----WDEtddIgS~~-----TL~Nd~rg~-dk~~SirYqY-e~G~F~AGiSvDe  197 (351)
T Consensus        72 ~~~R~~~VGL~~~~~G~v~~Gr~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~R~~N~i~Y~sp~~~Gf~~~a~y~~  151 (329)
T cd00342          72 LFGRQAYVGLSSDTYGTLTLGRQYTPLYDVLGTTDPFGGSGGGSAPGDGDNLAGTGRANNSVKYTSPFFGGLTFGAMYAF  151 (329)
T ss_pred             CCCCEEEEEECCCCCEEEEEEECCCHHHHEEEECCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCEEEEEEEEC
T ss_conf             52536899862588308998603777764114325553355442301246645670660289997676577899999953


Q ss_pred             CCCCCC-CCEEEEEEEEEEEECCEEEEEEEEEECCCC-------------CCEEEEEEEECCCCCCEEEEEEEEECCC--
Q ss_conf             146666-540347889634541268999852211466-------------5127988861367882024678873386--
Q gi|254780314|r  198 LQKDGL-KQVLGIGYMASYAIGKIRSTVTGGYDAGTN-------------NVAIRANISSPVSRAGTLDCGAVWASGD--  261 (351)
Q Consensus       198 LE~dg~-~n~VGV~g~vsg~aGavS~qltGGyDtd~e-------------eGAIRAl~ta~iG~PGTlglAgVwASgp--  261 (351)
T Consensus       152 g~~~~~~~~~~~~~~~~~Y~~g~~--~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~ga~Y~~g---~~~l~~~Y~~~~~~  226 (329)
T cd00342         152 GNQAGSTSNGRGYGAGLSYENGPL--SLGAAYDQQRNGGGAAGGAAGATSQRAYGAGASYDFG---GLKLGAGYTNTRND  226 (329)
T ss_pred             CCCCCCCCCCCEEEEEEEEECCCE--EEEEEEEEEECCCCCCCCCCCCCCEEEEEEEEEEEEC---CEEEEEEEEEEECC
T ss_conf             667787777857999999952999--9999999850676444566776514899999999968---99999999998835


Q ss_pred             C----CCCCCCCEEEEEEEEEEECEEEEECCCEEEECC--C--CCCCCCEEEEEEEEEEEEECCCEEEEEEEECCC
Q ss_conf             4----000112113664355631104786045254045--6--767852277877888885159127789873274
Q gi|254780314|r  262 N----SYYDKSKYSVFAGYKFDVAKSITISGGGQYFGD--I--NKTGKDGWSAGISAKYMISSGLEAQASVAFNDN  329 (351)
Q Consensus       262 N----aYY~~SEWaVAAeYaikaTDKl~ITPG~QY~gd--~--~~sg~DaWk~GlTvDYqItegL~tK~SVqY~D~  329 (351)
T Consensus       227 ~~~~~~~~~~~~~~~ga~y~~~~--~--~~~~~~y~~~~~~~~~~~~~~~~~~~lG~~Y~lSKrT~lY~~~~~~~n  298 (329)
T cd00342         227 NGGGGGSAKFNGYELGATYQLTP--A--LRLGAAYYYTKDRNDGGGDGKANQVALGADYALSKRTDLYAEYGYQKN  298 (329)
T ss_pred             CCCCCCCEEEEEEEEEEEEECCC--C--EEEEEEEEEEECCCCCCCCCCEEEEEEEEEEEECCCHHHHHHHHHEEC
T ss_conf             77778750268999999998078--7--389999999944567688897189999999971554898665054110