HHsearch alignment for GI: 254781044 and conserved domain: TIGR01945

>TIGR01945 rnfC electron transport complex, RnfABCDGE type, C subunit; InterPro: IPR010208 The six subunit complex RnfABCDGE in Rhodobacter capsulatus encodes an apparent NADH oxidoreductase responsible for electron transport to nitrogenase, necessary for nitrogen fixation . A closely related complex in Escherichia coli, RsxABCDGE (Reducer of SoxR), reduces the 2Fe-2S-containing superoxide sensor SoxR, active as a transcription factor when oxidized . This family of putative NADH oxidoreductase complexes exists in many of the same species as the related NQR, a Na(+)-translocating NADH-quinone reductase (IPR003667 from INTERPRO), but is distinct. This entry describes the C subunit.; GO: 0051539 4 iron 4 sulfur cluster binding, 0006118 electron transport, 0016020 membrane.
Probab=99.21  E-value=4.4e-12  Score=95.31  Aligned_cols=84  Identities=23%  Similarity=0.434  Sum_probs=62.7

Q ss_pred             CHHHHHHHHHHHHHHHHCCCHHHCCCEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCCCCCCHHHH
Q ss_conf             07776544668888873131322820010222101147889998851688843138899962286652767664734551
Q gi|254781044|r  157 SHEDRQKIDGLYECVMCACCSTSCPSYWWNSDRYLGPAILLQAYRWLIDSRDEFQGERLDNLEDPFRLYRCHTIMNCTQS  236 (259)
Q Consensus       157 sped~~~~~~~~~CI~CG~C~saCP~~~~~~~~flGP~~l~~a~r~~~D~rD~~~~erl~~l~~~~gi~~C~~C~~C~~v  236 (259)
T Consensus       361 ~~~E~~~~~~~~~CIRCg~Cv~~CPm~-------L~P~~L~~~A~----------~~~~d~~~-~~~L~DCIECG~C~Y~  422 (444)
T TIGR01945       361 DKEELTEPKPEKPCIRCGKCVNVCPMG-------LLPQQLNWLAK----------ADEFDEAA-EHNLMDCIECGSCSYV  422 (444)
T ss_pred             CCCCCCCCCCCCCCCCHHCCCCCCCCC-------CHHHHHHHHHH----------HHHHHHHH-HCCCCEEEECCCCCCC
T ss_conf             701167874667884400101556744-------22799998753----------10168899-6388146612566542


Q ss_pred             CCCCCCHHHHHHHHHHHHHHCC
Q ss_conf             8997888999999999998612
Q gi|254781044|r  237 CPKGLNPAKAIAKIKMMLLDRK  258 (259)
Q Consensus       237 CPkgI~~~~~I~~LRr~~v~rk  258 (259)
T Consensus       423 CPs~iPLV~Y~R~aK~~~~~~~  444 (444)
T TIGR01945       423 CPSNIPLVQYIRQAKAKLREKK  444 (444)
T ss_pred             CCCCCHHHHHHHHHHHHHHCCC
T ss_conf             8775258999988789861379