HHsearch alignment for GI: 254780289 and conserved domain: pfam03979

>pfam03979 Sigma70_r1_1 Sigma-70 factor, region 1.1. Region 1.1 modulates DNA binding by region 2 and 4 when sigma is unbound by the core RNA polymerase. Region 1.1 is also involved in promoter binding.

Probab=99.52  E-value=3.4e-14  Score=131.06  Aligned_cols=63  Identities=46%  Similarity=0.780  Sum_probs=58.3

Q ss_pred             HHCCHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCEEECCCCCCCC
Q ss_conf             020289999999978784886789997526843599888999999998479778327841000
Q gi|254780289|r   24 FDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE   86 (682)
Q Consensus        24 ~d~~~~~ik~LI~~gke~GylTydeIn~~LP~d~~~~e~ie~i~~~L~~~GI~Vve~~~~~~~   86 (682)
T Consensus         2 ~d~~~~~ik~LI~~GK~~GylTy~eIn~~Lp~~~~~~d~ie~i~~~L~~~gI~Vve~~~~~e~   64 (79)
T pfam03979         2 EDLSQAQVKKLIEQGKKRGYLTYDEINEALPPDDVDSEQIDDIISMLEDMGIEVVEEADSEEL   64 (79)
T ss_pred             CHHHHHHHHHHHHHHHHCCEEEHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCEEEECCCCCCC
T ss_conf             304799999999987645836399999768876799999999999999889968527972212