HHsearch alignment for GI: 254780456 and conserved domain: TIGR00358

>TIGR00358 3_prime_RNase VacB and RNase II family 3'-5' exoribonucleases; InterPro: IPR004476 This family is defined to identify a pair of paralogous 3'->5' exoribonucleases in Escherichia coli, plus the set of proteins apparently orthologous to one or the other in other eubacteria. VacB was characterised originally as required for the expression of virulence genes, but is now recognised as the exoribonuclease RNase R (Rnr). Its paralog in Escherichia coli and Haemophilus influenzae is designated exoribonuclease II (Rnb) . Both are involved in the degradation of mRNA, and consequently have strong pleiotropic effects that may be difficult to disentangle. Both these proteins share domain-level similarity (RNB, S1) with a considerable number of other proteins, and full-length similarity scoring below the trusted cut-off to proteins associated with various phenotypes but uncertain biochemistry; it may be that these latter proteins are also 3' exoribonucleases.; GO: 0003723 RNA binding, 0004540 ribonuclease activity, 0016070 RNA metabolic process.
Probab=94.21  E-value=0.029  Score=30.99  Aligned_cols=74  Identities=20%  Similarity=0.274  Sum_probs=61.3

Q ss_pred             CCCCC--CEEEEEEEEEECCEEEEEECCCCCEEEEEEHHHCCH--HHHC-----------CCHHHCCCCCEEEEEEEEEC
Q ss_conf             04789--879999999708908999617798499999747182--1210-----------42011068987999999970
Q gi|254780456|r  455 SLRKN--DVVSCEVISVSEGGIEVSLIDHKGINSFIRRSDLSR--DRVD-----------QDPGRFSKGQIVDACVVNVS  519 (576)
Q Consensus       455 ~~~~G--~iv~g~V~~v~~~G~~V~l~~~~gv~G~i~~s~is~--~~~~-----------~~~~~~~vG~~v~~~Vi~id  519 (576)
T Consensus       595 ~~~~g~~~~f~g~~~~~~~~g~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gd~~~~~~~~~~  673 (684)
T TIGR00358       595 LDKVGTDEEFSGEISSVTGFGLFVRLDD-NGIDGLVPVSTLPNNKDYYRFDKEKLALIGKGTGKVYRLGDRLEVKLTEVN  673 (684)
T ss_pred             HHHCCCCCCHHHHHHHHHCCCEEEEEEC-CCCCEEEEECCCCCCCHHEEECCCCCEEEECCCCCEEEECCEEEEEEEHHH
T ss_conf             7541675300122212202640687503-563103541222243112034213226876156735751541477520121


Q ss_pred             CCCCEEEEEE
Q ss_conf             5768699870
Q gi|254780456|r  520 KKDGKVSLSI  529 (576)
Q Consensus       520 ~~~~ri~LS~  529 (576)
T Consensus       674 ~~~~~~~~~~  683 (684)
T TIGR00358       674 LDERSIDFEL  683 (684)
T ss_pred             HHHHHHCEEC
T ss_conf             2233000001