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