PSIBLAST alignment of GI: 254780143 and protein with PDB id: 1i6v

>gi|14278483|pdb|1I6V|C Chain C, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex Length = 1118
 Score =  442 bits (1137), Expect = e-121,   Method: Composition-based stats.
 Identities = 284/590 (48%), Positives = 400/590 (67%), Gaps = 17/590 (2%)

Query: 368 KDRKDALLDIYRVMRPGDVSTFSVAESMFNFLFFDSDKYDLSTVGRVKMNMRLNLDTPD- 426
              ++A++ ++ ++RPGD      A +    L  D  +YDL   GR K   +L +     
Sbjct: 229 MRPEEAMVRLFTLLRPGDPPKKDKALAYLFGLLADPKRYDLGEAGRYKAEEKLGVGLSGR 288

Query: 427 -----DVRHIRKEDIIAIIKILVDLRNGKG--TIDDIDNLGNRRVRSVGEMLKNQYRLGL 479
                +    + E  +  ++ L  L  G     +DDID+LGNRR+R+VGE++ +Q+R+GL
Sbjct: 289 TLVRFEDGEFKDEVFLPTLRYLFALTAGVPGHEVDDIDHLGNRRIRTVGELMADQFRVGL 348

Query: 480 LRMERSIKERISSVDIDSVMPQDLINAKPVVSAVCEFFCSSQLSQLEEHVNSLSRITHTR 539
            R+ R ++ER+     D++ P  L+N++P+ +A+ EFF  SQLSQ ++  N LS + H R
Sbjct: 349 ARLARGVRERMVMGSPDTLTPAKLVNSRPLEAALREFFSRSQLSQFKDETNPLSSLRHKR 408

Query: 540 RLSALGQGGVARARAGVEMRDVHPTHYGRICPAETSEGHNIGLVSSLTSFARVNAYGFIE 599
           R+SALG GG+ R RAG ++RDVH THYGRICP ET EG NIGL++SL ++ARV+A GFI 
Sbjct: 409 RISALGPGGLTRERAGFDVRDVHRTHYGRICPVETPEGANIGLITSLAAYARVDALGFIR 468

Query: 600 TPYRKVCDGKVTNDVVYLSAMEEENRYIAQANSSLDEDGSFTEELVFCRCAGEEILVPRE 659
           TPYR+V +G VT +VVY++A EE+   IAQAN+ L+ D     + V  R  GE ++V  E
Sbjct: 469 TPYRRVKNGVVTEEVVYMTASEEDRYTIAQANTPLEGD-RIATDRVVARRRGEPVIVAPE 527

Query: 660 KIDFIDASPKQVVSIAASLIPFLENDDSNRVLMGCNMQRQAVPLLKAEAPFVGTGMESVV 719
           +++F+D SPKQV S+  +LIPFLE+DD+NR LMG NMQ QAVPL++A+AP V TG+E  V
Sbjct: 528 EVEFMDVSPKQVFSLNTNLIPFLEHDDANRALMGSNMQTQAVPLIRAQAPVVMTGLEERV 587

Query: 720 AKSSGAAIVAKRAGIVEQVDAIRIVIRSVEGDLDPSTSGVDIYRLMKFQRSNQNTCVNQR 779
            + S AA+ A+  G V +VD  RI +R  +G L        ++ L ++ RSNQ T  +QR
Sbjct: 588 VRDSLAALYAEEDGEVVKVDGTRIAVRYEDGRL--------VHPLRRYARSNQGTAFDQR 639

Query: 780 PLVKVGDEVRRNDIIADGPSTDLGDLALGRNMLVAFMPWHGYNFEDSMLISERMVSEDVF 839
           P V+VG  V++ D++ADGP+++ G LALG+N+LVA MP+ GYNFED+++ISE ++  D +
Sbjct: 640 PRVRVGQRVKKGDLLADGPASEEGFLALGQNVLVAIMPFDGYNFEDAIVISEELLKRDFY 699

Query: 840 TSIHIEEFEVMARDTKLGPEEITRDIPNVSEEGLKNIDECGIICVGAEVNPGDILVGKIT 899
           TSIHIE +E+ ARDTKLGPE ITRDIP++SE  L+++DE GI+ +GAEV PGDILVG+ +
Sbjct: 700 TSIHIERYEIEARDTKLGPERITRDIPHLSEAALRDLDEEGIVRIGAEVKPGDILVGRTS 759

Query: 900 PKGESPMTPEEKLLRAIFGEKAVDVRDTSLRVPSGVSGTVVDVRIFNRHG 949
            KGE   +PEE+LLR+IFGEKA DV+DTSLRVP G  G VV      R  
Sbjct: 760 FKGEQEPSPEERLLRSIFGEKARDVKDTSLRVPPGEGGIVVGRLRLRRGD 809