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