HHsearch alignment for GI: 254780170 and conserved domain: TIGR03414
>TIGR03414 ABC_choline_bnd choline ABC transporter, periplasmic binding protein. Partial phylogenetic profiling (PMID:16930487) vs. the genome property of glycine betaine biosynthesis from choline consistently reveals a member of this ABC transporter periplasmic binding protein as the best match, save for the betaine biosynthesis enzymes themselves. Genomes often carry several paralogs, one encoded together with the permease and ATP-binding components and another encoded next to a choline-sulfatase gene, suggesting that different members of this protein family interact with shared components and give some flexibility in substrate. Of two members from Sinorhizobium meliloti 1021, one designated ChoX has been shown experimentally to bind choline (though not various related compounds such as betaine) and to be required for about 60 % of choline uptake. Members of this protein have an invariant Cys residue near the N-terminus and likely are lipoproteins.
Probab=96.27 E-value=0.083 Score=31.76 Aligned_cols=130 Identities=11% Similarity=0.177 Sum_probs=79.7
Q ss_pred HHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHC-------CCCCCCCCCCCCC-EEEEEE
Q ss_conf 99999999996798220259981431002677439627998124325320110-------2784353223440-234630
Q gi|254780170|r 61 VDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREIS-------LGLAFRPITYFDG-QGFIMH 132 (342)
Q Consensus 61 VDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~-------~~v~Fs~~~~~dg-q~~lVr 132 (342)
T Consensus 24 t~v~~~iLE~~G---Y~Ve~~~~~~~~~~~~la~GdiDv~~e~--W~p~~~~~~~~~~~~g~v~~lg~~~~~a~~g~~VP 98 (290)
T TIGR03414 24 TALASVLLEGLG---YQPKVTLLSVPVTYAGLKDGDLDVFLGN--WMPAMEPDIKPYLESGSVEVLGPNLEGAKYTLAVP 98 (290)
T ss_pred HHHHHHHHHHCC---CCEEEEECCHHHHHHHHHCCCCEEEEEC--CCCCCHHHHHHHHHCCCEEECCCCCCCCEEEEEEC
T ss_conf 999999999749---9648996774999999976997078711--14785778998863696898356667863789854
Q ss_pred CC---CCCCCHHHHC-------CCCEEEEECCCHHHHHHHHHH--HCCC-CCCEEEECCHH----HHHHHHHCCCEEEEE
Q ss_conf 21---1347536417-------862034313426999999998--6299-85078747989----999998739602998
Q gi|254780170|r 133 KK---KGISSVSQLS-------GASICVQAGTTTELTLADYFK--AHNM-KYHPIVFERVE----EIDAAYRAHRCDAYT 195 (342)
Q Consensus 133 k~---~~i~s~~dL~-------G~~I~v~~GTT~e~~l~~~~~--~~~~-~~~~v~~~~~~----~a~~al~~Gr~DA~~ 195 (342)
T Consensus 99 ~Yv~d~~l~si~DL~~~~~~f~g~i~gi~~G~~~~~~~~~~i~~~~ygL~~~~l~~~-S~aam~a~l~~A~~~~epiv~~ 177 (290)
T TIGR03414 99 TYVADAGLKSFADIAKFKDKLDGKIYGIEPGNDGNRLIQKMIDKNAFGLGGFKLVES-SEAGMLAQVARAVKRKEWVVFL 177 (290)
T ss_pred HHHHHCCCCCHHHHHHCHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCCCCCEECCC-CHHHHHHHHHHHHHCCCCEEEE
T ss_conf 147765999999998586752997613679984778999998764079887021368-8899999999999869998998
Q ss_pred E
Q ss_conf 2
Q gi|254780170|r 196 G 196 (342)
Q Consensus 196 ~ 196 (342)
T Consensus 178 ~ 178 (290)
T TIGR03414 178 G 178 (290)
T ss_pred E
T ss_conf 2