PSIBLAST alignment of GI: 254780142 and protein with PDB id: 1iw7
gi|21730340|pdb|1IW7|D Chain D, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution Length = 1524
>gi|21730346|pdb|1IW7|N Chain N, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution Length = 1524
Score = 708 bits (1828), Expect = 0.0, Method: Composition-based stats.
Identities = 387/985 (39%), Positives = 542/985 (55%), Gaps = 78/985 (7%)
Query: 177 QFIAMMGADAIYELLIALDLQNLALTLRDQLSKSSSIFRRKKIIKRLKIVDSFITSGNNP 236
A MGA+AI +LL LDL+ L L +++ K S RR K KRL++V +F+ SGN P
Sbjct: 451 DIDARMGAEAIQQLLKELDLEALEKELLEEM-KHPSRARRAKARKRLEVVRAFLDSGNRP 509
Query: 237 GWMIIRKLPVLPPDLRPLVALDFGRFAASDLNDLYRRVIGRNNRLMRLKSLHAPEIIIRN 296
WMI+ +PVLPPDLRP+V +D GRFA SDLNDLYRR+I RNNRL +L + APEIIIRN
Sbjct: 510 EWMILEAVPVLPPDLRPMVQVDGGRFATSDLNDLYRRLINRNNRLKKLLAQGAPEIIIRN 569
Query: 297 EKRMLQESVDALFDNGRHKRVVTGAN-RRPLKSLSDMLKGKQGRFRTNLLGKRVDYSGRS 355
EKRMLQE+VDAL DNGR VT RPL+SL+D+L GKQGRFR NLLGKRVDYSGRS
Sbjct: 570 EKRMLQEAVDALLDNGRRGAPVTNPGSDRPLRSLTDILSGKQGRFRQNLLGKRVDYSGRS 629
Query: 356 VIVAGPELQLHQCGLPKLMALELFKPFLYAQLEKKGYVSTVKQAKKFVEKER---PEVWD 412
VIV GP+L+LHQCGLPK MALELFKPFL ++E+KG VK A++ +E++R EVWD
Sbjct: 630 VIVVGPQLKLHQCGLPKRMALELFKPFLLKKMEEKGIAPNVKAARRMLERQRDIKDEVWD 689
Query: 413 VLAEVVHQHVVLLNRAPSLHRLSMQAFEPKIISGKAIQLHPLVCAGYNADFDGDQMAVYA 472
L EV+H VVLLNRAP+LHRL +QAF+P ++ G++IQLHPLVC +NADFDGDQMAV+
Sbjct: 690 ALEEVIHGKVVLLNRAPTLHRLGIQAFQPVLVEGQSIQLHPLVCEAFNADFDGDQMAVHV 749
Query: 473 VISPEAQLEARVLMLSTNNLLHPASGAPVTVPSQDMVLGLCYLSTVHEGDPGEGMLFADM 532
+S AQ EAR+ MLS +NLL PASG P+ PS+D++LGL Y++ V + G G+ FA
Sbjct: 750 PLSSFAQAEARIQMLSAHNLLSPASGEPLAKPSRDIILGLYYITQVRKEKKGAGLEFATP 809
Query: 533 GEVYHALENKIVTLHSKIRGRYKSV----------------------------DKDGNSI 564
E A E V L++ I+ + +
Sbjct: 810 EEALAAHERGEVALNAPIKVAGRETSVGRLKYVFANPDEALLAVAHGIVDLQDVVTVRYM 869
Query: 565 SKIYDTTPGRMIIGEIL---PRHHEISFDIC--NQEMIKKNISAMVDTIYRHCGQKSTVA 619
K +T+PGR++ I+ ++++++ + K ++ +V + G + T
Sbjct: 870 GKRLETSPGRILFARIVAEAVEDEKVAWELIQLDVPQEKNSLKDLVYQAFLRLGMEKTAR 929
Query: 620 FCDDLMRLGFRYACSSGISFGKDDIIVPESKEKIIAEADKMVKEYENQYNDGLITRGEKY 679
D L GF ++ +SGI+ G DD ++PE K++ + EAD+ + + E Y G +T E+Y
Sbjct: 930 LLDALKYYGFTFSTTSGITIGIDDAVIPEEKKQYLEEADRKLLQIEQAYEMGFLTDRERY 989
Query: 680 NKVVDLWGKTTDKVTEEMMARIKRVEFDPETGRQKKMNSIFMMSHSGARGSIHQMRQLGG 739
++++ LW +TT+KVT+ + N +++M+ SGARG+ Q+RQL G
Sbjct: 990 DQILQLWTETTEKVTQAVFKNF---------EENYPFNPLYVMAQSGARGNPQQIRQLCG 1040
Query: 740 MRGLIAKPSGEIIESPIRSHFKGGLCGFEFFQSCVGGRKGLLDVVMRTASSGYLSRRLVD 799
+RGL+ KPSGE E P+RS F+ GL E+F S G RKG D +RTA SGYL+R+LVD
Sbjct: 1041 LRGLMQKPSGETFEVPVRSSFREGLTVLEYFISSHGARKGGADTALRTADSGYLTRKLVD 1100
Query: 800 VAQNCVVNQVDCNTKKGLTITHIVDSGQVVYSLGSR--------VLGRTALDDIINPLTN 851
V VV + DC T + +V SL R + GR ++
Sbjct: 1101 VTHEIVVREADCGTTN-YISVPLFQPDEVTRSLRLRKRADIEAGLYGRVLAREV---EVL 1156
Query: 852 ECIVKAGQLILESHVNEIEKCGI----RSVRIRSALTCESSRGVCVLCYGRDLARGSLVN 907
++ G+ + V+ + K + V +RS LTC++ GVC CYG DL+ V+
Sbjct: 1157 GVRLEEGRYLSMDDVHLLIKAAEAGEIQEVPVRSPLTCQTRYGVCQKCYGYDLSMARPVS 1216
Query: 908 VGEAVGVIAAQSIGEPGTQLTMRTFHLGGAVTVMDRSFIESPCDGIVKIKNRNVCRNSTN 967
+GEAVG++AAQSIGEPGTQLTMRTFH GG D G+ ++ R
Sbjct: 1217 IGEAVGIVAAQSIGEPGTQLTMRTFHTGGVAGAAD------ITQGLPRVIELFEARRPKA 1270
Query: 968 DLISMGRNTTLQILDMSGQ---------EQYSHRIMYGAKLFVDDGGVIECGQRISEWDP 1018
+ + ++I + + +++ A+L V DG +E GQ ++
Sbjct: 1271 KAVISEIDGVVRIEETEEKLSVFVESEGFSKEYKLPKEARLLVKDGDYVEAGQPLTRGAI 1330
Query: 1019 HTFPIITEVSGTVGFEDLVDGISVIESIGESTGIAKRKVIDWRFASRSQNLKPAIVVTDE 1078
++ LV+ I + K I R + +
Sbjct: 1331 DPHQLLEAKGPEAVERYLVEEIQKVYRAQGVKLHDKHIEIVVRQMMKYVEVTDPGDSRLL 1390
Query: 1079 NGVVLKSARGTDARWFLPVDALLSV 1103
G VL+ L + V
Sbjct: 1391 EGQVLEKWDVEALNERLIAEGKTPV 1415