RPSBLAST alignment for GI: 254780289 and conserved domain: TIGR02394

>gnl|CDD|131447 TIGR02394, rpoS_proteo, RNA polymerase sigma factor RpoS. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoS (also called sigma-38, KatF, etc.), found only in Proteobacteria. This sigma factor is induced in stationary phase (in response to the stress of nutrient limitation) and becomes the second prinicipal sigma factor at that time. RpoS is a member of the larger Sigma-70 subfamily (TIGR02937) and most closely related to RpoD (TIGR02393). Length = 285
 Score =  246 bits (629), Expect = 2e-65
 Identities = 107/262 (40%), Positives = 160/262 (61%), Gaps = 3/262 (1%)

Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475
           I  +  ++  E          G+ EA   +K M+E+NLRLV+S+AK Y NRGL  LDLI+
Sbjct: 22  IGFKPLLTAEEEIAYARRALAGDFEA---RKVMIESNLRLVVSIAKHYVNRGLPLLDLIE 78

Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535
           EGN+GLM A EKFD   G++FSTYA WW++Q I R+I +Q+ TIR+PVH+  +++  +R 
Sbjct: 79  EGNLGLMHAVEKFDPERGFRFSTYATWWIRQTIERAIMNQARTIRLPVHVIKELNVYLRA 138

Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595
           AR++  K+ REP+ EEIA+ L  PVE V +VL + +   SL+ P+ D+ +  L D I D+
Sbjct: 139 ARQLEKKLGREPSVEEIAELLDKPVEDVSRVLALNERITSLDAPLDDDSSKSLLDTIADE 198

Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655
            ++ P       +L++     LA L  R+  VL  RFG+      TLEEV  +  +TRER
Sbjct: 199 QSIDPESLVQNDDLKQLIEAWLAELNERQREVLARRFGLLGYEPATLEEVAAEVGLTRER 258

Query: 656 IRQIEAKAIRKLKHPSRSKKLR 677
           +RQI+ +A++KL+       + 
Sbjct: 259 VRQIQVEALKKLRRILERDGVD 280