RPSBLAST alignment for GI: 254780142 and conserved domain: TIGR02390

>gnl|CDD|162833 TIGR02390, RNA_pol_rpoA1, DNA-directed RNA polymerase subunit A'. This family consists of the archaeal A' subunit of the DNA-directed RNA polymerase. The example from Methanocaldococcus jannaschii contains an intein. Length = 868
 Score =  275 bits (705), Expect = 5e-74
 Identities = 241/905 (26%), Positives = 369/905 (40%), Gaps = 198/905 (21%)

Query: 19  DSVRISIASPAKIASLSYGEIKKPETINYRTFKPERDGLFCARIFGPIKDYECICGKYKR 78
            S++  + SP +I  +S  E+   +T +   + P   GL   R  G I+           
Sbjct: 5   GSIKFGLLSPEEIRKMSVVEVVTADTYDDDGY-PIEGGLMDPR-LGVIE----------- 51

Query: 79  MKYKGIICEKCGVEVTLSSVRRDRMAHIDLASPVAHPWFLKSLPSRISTLLGMSLRDVER 138
               G+ C+ CG +V           HI+LA PV H  F K     I  +L  + R   R
Sbjct: 52  ---PGLRCKTCGGKV---GECPGHFGHIELARPVVHVGFAKE----IYKILRATCRKCGR 101

Query: 139 VL--------YFESYVVVDPGLSSLEKYQILTEEEYVEAVSQF-----GQDQF-IAMMGA 184
           +         Y E    +      L     L E+   EA  +      G++Q  I     
Sbjct: 102 ITLTEEEIEQYLEKINKLKEEGGDLAS--TLIEKIVKEAAKRMKCPHCGEEQKKIKFEKP 159

Query: 185 DAIYELLIALDLQNLALTLRDQLSKSSSIFRRKKIIKRLKIVDSFITSGNNPGWMIIRKL 244
              YE     D++     +R++L K           +  +++         P WM++  L
Sbjct: 160 TYFYEEGKEGDVKLTPSEIRERLEKIPD--------EDAELL-GINPKVARPEWMVLTVL 210

Query: 245 PVLPPDLRPLVALDFGRFAASDLNDLYRRVIGRNNRLMRLKSLHAPEIIIRNEKRMLQES 304
           PV P  +RP + L+ G  +  DL      +I  N RL       AP++II +   +LQ  
Sbjct: 211 PVPPVTVRPSITLETGERSEDDLTHKLVDIIRINQRLKENIEAGAPQLIIEDLWELLQYH 270

Query: 305 VDALFDN-------GRHKRVVTGANRRPLKSLSDMLKGKQGRFRTNLLGKRVDYSGRSVI 357
           V   FDN        RH+        RPLK+L+  LKGK+GRFR NL GKRV++S R+VI
Sbjct: 271 VATYFDNELPGIPPARHRS------GRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVI 324

Query: 358 VAGPELQLHQCGLPKLMALELFKPFLYAQLEKKGYVSTVKQAKKFVEKERPEVWD----- 412
              P + +++ G+P+ +A EL  P              + + +++V    P+ W      
Sbjct: 325 SPDPNISINEVGVPEQIAKELTVPERVTPW-------NIDELREYVLNG-PDSWPGANYV 376

Query: 413 ----------------VLAE------VVHQH-----VVLLNRAPSLHRLSMQAFEPKIIS 445
                            LAE      VV +H     +VL NR PSLHR+SM   + K++ 
Sbjct: 377 IRPDGRRIKIRDENKEELAERLEPGWVVERHLIDGDIVLFNRQPSLHRMSMMGHKVKVLP 436

Query: 446 GKAIQLHPLVCAGYNADFDGDQMAVYAVISPEAQLEARVLMLSTNNLLHPASGAPVTVPS 505
           GK  +L+  VC  YNADFDGD+M ++   + EA+ EAR LML   ++L P  G P+    
Sbjct: 437 GKTFRLNLAVCPPYNADFDGDEMNLHVPQTEEARAEARELMLVEEHILTPRYGGPIIGGI 496

Query: 506 QDMVLGLCYLSTVHEGDPGEGMLFADMGEVYHALENKIVTLHSKIRGRYKSVDKDGNSIS 565
            D + G  YL T         +   +  EV   L              Y     +     
Sbjct: 497 HDYISGA-YLLTHK-----STLFTKE--EVQTILGV----------AGYFGDPPEPAIEK 538

Query: 566 KIYDTTPGRMIIGEILPR----------------------HHEISFDICNQEMI-----K 598
                T G+ I    LP                        H+    I N +++     K
Sbjct: 539 PKEYWT-GKQIFSAFLPEDLNFEGRAKICSGSDACKKEECPHDAYVVIKNGKLLKGVIDK 597

Query: 599 KNISA----MVDTIYRHCGQKSTVAFCDDLMRLGFRYACSSGISFGKDDIIVPESK---- 650
           K I A    ++  I R  G ++   F D + RL  R+    G + G DDI +P+      
Sbjct: 598 KAIGAEKGKILHRIVREYGPEAARRFLDSVTRLFIRFITLRGFTTGIDDIDIPKEAKEEI 657

Query: 651 EKIIAEA----DKMVKEYENQYNDGLITRGEK---YNKVVDLWGKTTDKVTEEMMARIKR 703
           E++I +A    D +++ Y N   + L  R  +     K++++ GK  D+  E     +  
Sbjct: 658 EELIEKAEKRVDNLIERYRNGELEPLPGRTVEETLEMKIMEVLGKARDEAGE-----VAE 712

Query: 704 VEFDPETGRQKKMNSIFMMSHSGARGSIHQMRQLGGM------------RGLIAK----- 746
              DPE       N   +M+ +GARGS+  + Q+  M            RG   +     
Sbjct: 713 KYLDPE-------NHAVIMARTGARGSLLNITQMAAMVGQQSVRGGRIRRGYRNRTLPHF 765

Query: 747 PSGEIIESP-----IRSHFKGGLCGFEFFQSCVGGRKGLLDVVMRTASSGYLSRRLVDVA 801
             G+I         +RS FK GL   E+F    GGR+GL+D  +RT+ SGY+ RRL++  
Sbjct: 766 KKGDI--GAKARGFVRSSFKKGLDPTEYFFHAAGGREGLVDTAVRTSQSGYMQRRLINAL 823

Query: 802 QNCVV 806
           Q+  V
Sbjct: 824 QDLYV 828