PSIBLAST alignment of GI: 254780142 and protein with PDB id: 2gho

>gi|109157857|pdb|2GHO|D Chain D, Recombinant Thermus Aquaticus Rna Polymerase For Structural Studies Length = 1233
 Score =  992 bits (2564), Expect = 0.0,   Method: Composition-based stats.
 Identities = 488/1150 (42%), Positives = 662/1150 (57%), Gaps = 90/1150 (7%)

Query: 16   RGFDSVRISIASPAKIASLSYGEIKKPETINYRTFKPERDGLFCARIFGPIKDYECICGK 75
            +    VRI++ASP KI S SYGE++KPETINYRT KPERDGLF  RIFGPIKDYEC CGK
Sbjct: 3    KEVRKVRIALASPEKIRSWSYGEVEKPETINYRTLKPERDGLFDERIFGPIKDYECACGK 62

Query: 76   YKRMKYKGIICEKCGVEVTLSSVRRDRMAHIDLASPVAHPWFLKSLPSRISTLLGMSLRD 135
            YKR +++G +CE+CGVEVT S VRR RM HI+LA+P AH WF+K +PS+I TLL +S  +
Sbjct: 63   YKRQRFEGKVCERCGVEVTRSIVRRYRMGHIELATPAAHIWFVKDVPSKIGTLLDLSATE 122

Query: 136  VERVLYFESYVVVDPGLSSL-----EKYQILTEEEYVEAVSQFGQDQFIAMMGADAIYEL 190
            +E+VLYF  Y+V+DP  + L     EK Q+LT+EEY             A MGA+AI EL
Sbjct: 123  LEQVLYFNKYIVLDPKGAVLDGVPVEKRQLLTDEEY---------GGIDARMGAEAIQEL 173

Query: 191  LIALDLQNLALTLRDQLSKSSSIFRRKKIIKRLKIVDSFITSGNNPGWMIIRKLPVLPPD 250
            L  LDL+ L   L +++ K  S  RR K  KRL++V +F+ SGN P WMI+  +PVLPPD
Sbjct: 174  LKELDLEKLERELLEEM-KHPSRARRAKARKRLEVVRAFLDSGNRPEWMILEAVPVLPPD 232

Query: 251  LRPLVALDFGRFAASDLNDLYRRVIGRNNRLMRLKSLHAPEIIIRNEKRMLQESVDALFD 310
            LRP+V +D GRFA SDLNDLYRR+I RNNRL +L +  APEIIIRNEKRMLQE+VDA+ D
Sbjct: 233  LRPMVQVDGGRFATSDLNDLYRRLINRNNRLKKLLAQGAPEIIIRNEKRMLQEAVDAVID 292

Query: 311  NGRHKRVVTGAN-RRPLKSLSDMLKGKQGRFRTNLLGKRVDYSGRSVIVAGPELQLHQCG 369
            NGR    VT     RPL+SL+D+L GKQGRFR NLLGKRVDYSGRSVIV GP+L+LHQCG
Sbjct: 293  NGRRGSPVTNPGSERPLRSLTDILSGKQGRFRQNLLGKRVDYSGRSVIVVGPQLKLHQCG 352

Query: 370  LPKLMALELFKPFLYAQLEKKGYVSTVKQAKKFVEKER---PEVWDVLAEVVHQHVVLLN 426
            LPK MALELFKPFL  ++E+K +   VK A++ +E++R    EVWD L EV+H  VVLLN
Sbjct: 353  LPKRMALELFKPFLLKKMEEKAFAPNVKAARRMLERQRDIKDEVWDALEEVIHGKVVLLN 412

Query: 427  RAPSLHRLSMQAFEPKIISGKAIQLHPLVCAGYNADFDGDQMAVYAVISPEAQLEARVLM 486
            RAP+LHRL +QAF+P ++ G++IQLHPLVC  +NADFDGDQMAV+  +S  AQ EAR+ M
Sbjct: 413  RAPTLHRLGIQAFQPVLVEGQSIQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAEARIQM 472

Query: 487  LSTNNLLHPASGAPVTVPSQDMVLGLCYLSTVHEGDPGEGMLFADMGEVYHALENKIVTL 546
            LS +NLL PASG P+  PS+D++LGL Y++ V +   G GM FA   E   A E   V L
Sbjct: 473  LSAHNLLSPASGEPLAKPSRDIILGLYYITQVRKEKKGAGMAFATPEEALAAYERGEVAL 532

Query: 547  HSKIRGRYKSV----------------------------DKDGNSISKIYDTTPGRMIIG 578
            ++ I    +                                    + +  +T+PGR++  
Sbjct: 533  NAPIVVAGRETSVGRLKFVFANPDEALLAVAHGLLDLQDVVTVRYLGRRLETSPGRILFA 592

Query: 579  EIL---PRHHEISFDIC--NQEMIKKNISAMVDTIYRHCGQKSTVAFCDDLMRLGFRYAC 633
             I+       +++ ++   +    K ++  +V   +   G + T    D L   GF  + 
Sbjct: 593  RIVGEAVGDEKVAQELIQMDVPQEKNSLKDLVYQAFLRLGMEKTARLLDALKYYGFTLST 652

Query: 634  SSGISFGKDDIIVPESKEKIIAEADKMVKEYENQYNDGLITRGEKYNKVVDLWGKTTDKV 693
            +SGI+ G DD ++PE K++ + EAD+ +++ E  Y  G +T  E+Y++V+ LW +TT+KV
Sbjct: 653  TSGITIGIDDAVIPEEKQRYLEEADRKLRQIEQAYEMGFLTDRERYDQVIQLWTETTEKV 712

Query: 694  TEEMMARIKRVEFDPETGRQKKMNSIFMMSHSGARGSIHQMRQLGGMRGLIAKPSGEIIE 753
            T+ +                   N +++M+ SGARG+  Q+RQL GMRGL+ KPSGE  E
Sbjct: 713  TQAVFKNF---------EENYPFNPLYVMAQSGARGNPQQIRQLCGMRGLMQKPSGETFE 763

Query: 754  SPIRSHFKGGLCGFEFFQSCVGGRKGLLDVVMRTASSGYLSRRLVDVAQNCVVNQVDCNT 813
             P+RS F+ GL   E+F S  G RKG  D  +RTA SGYL+R+LVDVA   VV + DC T
Sbjct: 764  VPVRSSFREGLTVLEYFISSHGARKGGADTALRTADSGYLTRKLVDVAHEIVVREADCGT 823

Query: 814  KKGLTITHIVDSGQVVYSLGSR--------VLGRTALDDIINPLTNECIVKAGQLILESH 865
                    +    +V  +L  R        + GR    ++        + +   L LE  
Sbjct: 824  TN-YISVPLFQMDEVTRTLRLRKRSDIESGLYGRVLAREV--EALGRRLEEGRYLSLEDV 880

Query: 866  VNEIEKC---GIRSVRIRSALTCESSRGVCVLCYGRDLARGSLVNVGEAVGVIAAQSIGE 922
               I+      +R V +RS LTC++  GVC  CYG DL+    V++GEAVGV+AA+SIGE
Sbjct: 881  HFLIKAAEAGEVREVPVRSPLTCQTRYGVCQKCYGYDLSMARPVSIGEAVGVVAAESIGE 940

Query: 923  PGTQLTMRTFHLGGAVTVMDRSFIESPCDGIVKIKNRNVCRNSTNDLISMGRNTTLQILD 982
            PGTQLTMRTFH GG     D         G+ ++      R      +    +  ++I +
Sbjct: 941  PGTQLTMRTFHTGGVAVGTD------ITQGLPRVIELFEARRPKAKAVISEIDGVVRIEE 994

Query: 983  MSGQ---------EQYSHRIMYGAKLFVDDGGVIECGQRISEWDPHTFPIITEVSGTVGF 1033
               +             +++   A+L V DG  +E GQ ++        ++         
Sbjct: 995  GEDRLSVFVESEGFSKEYKLPKDARLLVKDGDYVEAGQPLTRGAIDPHQLLEAKGPEAVE 1054

Query: 1034 EDLVDGISVIESIGESTGIAKRKVIDWRFASRSQNLKPAIVVTDENGVVLKSARGTDARW 1093
              LVD I  +          K   I  R   +   +          G VL+         
Sbjct: 1055 RYLVDEIQKVYRAQGVKLHDKHIEIVVRQMLKYVEVTDPGDSRLLEGQVLEKWDVEALNE 1114

Query: 1094 FLPVDALLSV 1103
             L  +  + V
Sbjct: 1115 RLIAEGKVPV 1124