HHsearch alignment for GI: 254780822 and conserved domain: TIGR02739
>TIGR02739 TraF type-F conjugative transfer system pilin assembly protein TraF; InterPro: IPR014110 This entry includes TraF; a protein that is part of a large group of proteins involved in conjugative transfer of plasmid DNA, specifically in the F-type system. TraF has been predicted to contain a thioredoxin fold and has been shown to be localized to the periplasm . Unlike the related protein TrbB (IPR014109 from INTERPRO), TraF does not contain a conserved pair of cysteines and has been shown not to function as a thiol disulphide isomerase by complementation of an Escherichia coli DsbA defect . The protein is believed to be involved in pilin assembly . Even more closely related than TrbB is a clade of genes (IPR014111 from INTERPRO), which do contain the CXXC motif, but it is unclear whether these are involved in type-F conjugation systems per se..
Probab=96.18 E-value=0.026 Score=34.50 Aligned_cols=84 Identities=24% Similarity=0.246 Sum_probs=67.1
Q ss_pred CEEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCC---------C----CHHHHHHHCCCCCCEEEEEE--CCEE
Q ss_conf 4999987699702221346666542100012333226723---------2----65777762315688799997--9989
Q gi|254780822|r 21 PVVVDFWASWCRPCVKLSPIIDDIADELADKVKITKLDIE---------E----SSEISTRYQISSIPTLILFK--DGKV 85 (107)
Q Consensus 21 ~vlv~f~a~wC~~C~~~~p~~~~l~~~~~~~i~~~~vd~d---------~----~~~l~~~~~v~~~Pt~~~~~--~g~~ 85 (107)
T Consensus 162 ~Gl~FFYrG~sp~s~~~a~~i~~F~~~y~~~vi~vS~DG~~~p~l~n~R~iPledsgqa~~l~V~~~PAl~LV~P~~~~~ 241 (270)
T TIGR02739 162 YGLFFFYRGKSPISQKLAPVIQAFAKEYGISVIPVSVDGTLIPELPNSRLIPLEDSGQAQKLGVKYFPALYLVDPKSQKM 241 (270)
T ss_pred CCEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCEEEEEECCCCCE
T ss_conf 62478865998456789999998885419667566124320546688883565451357661342034256872676722
Q ss_pred EEEEECCCCCHHHHHHHHHH
Q ss_conf 85887489998999999984
Q gi|254780822|r 86 IDRMMPGASSQSDIIEWILS 105 (107)
Q Consensus 86 ~~~~~~g~~~~~~l~~~i~~ 105 (107)
T Consensus 242 ~PlAY-Gf~Sqd~L~~ri~~ 260 (270)
T TIGR02739 242 SPLAY-GFISQDELKERILN 260 (270)
T ss_pred EEEEH-HHCCHHHHHHHHHH
T ss_conf 01001-02048899999998