HHsearch alignment for GI: 254781078 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=97.18 E-value=0.013 Score=32.91 Aligned_cols=58 Identities=19% Similarity=0.248 Sum_probs=37.9
Q ss_pred EEEEEEEEEEECCCCEEEEEEEEEEECCCCEEECCCCCCCCCCCCCCCCEEEEEEEEEEEC
Q ss_conf 3798731667327876888898887448730003666666442201234138999886209
Q gi|254781078|r 182 SVVLGIGLDYMVNYDISLSASYRYIPHHIHSVNNSNAKSDVERVDRKGNAHIASLGINMHF 242 (242)
Q Consensus 182 G~tvGaGVEYait~nwslraEY~Y~d~g~~~~~~~~~~~~~~~~~~~~~~h~v~~GinY~F 242 (242)
T Consensus 272 ~~~~~lG~~Y~lSKrT~lY~~~~~~~n~~~~~~~~~---~~~~~~~~~~~~~~~~Girh~F 329 (329)
T cd00342 272 ANQVALGADYALSKRTDLYAEYGYQKNSGGASTGLA---GGGGPSSGNNQDGVAVGIRHKF 329 (329)
T ss_pred EEEEEEEEEEEECCCHHHHHHHHHEECCCCCCEECC---CCCCCCCCCCEEEEEEEEEEEC
T ss_conf 189999999971554898665054110687504325---6777789986599999819989