PSIBLAST alignment of GI: 254780143 and protein with PDB id: 1l9u

>gi|21466005|pdb|1L9U|C Chain C, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution Length = 1118
>gi|21466011|pdb|1L9U|L Chain L, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution Length = 1118
 Score =  497 bits (1280), Expect = e-138,   Method: Composition-based stats.
 Identities = 190/509 (37%), Positives = 255/509 (50%), Gaps = 43/509 (8%)

Query: 877  DECGIICVGAEVNPGDILVGKITPKGESPMTPEEKLLRAIFGEKAVDVRDTS------LR 930
            D+   + VG  V  GD+L        E  +   + +L AI      +  D        L+
Sbjct: 637  DQRPRVRVGQRVKKGDLLADGP-ASEEGFLALGQNVLVAIMPFDGYNFEDAIVISEELLK 695

Query: 931  VPSGVSGTVVDVRIFNRHGIDKNERSISVEREQIELLARDKDDEQVILDRNIYSRLMEIL 990
                 S  +    I  R      ER         E   RD D+E  I+      +  +IL
Sbjct: 696  RDFYTSIHIERYEIEARDTKLGPERITRDIPHLSEAALRDLDEE-GIVRIGAEVKPGDIL 754

Query: 991  CGQNAVSGPKGFKKSTVLSSDLISEYPRSQWWQFAVQDEKVQRNVESLKVQYETSKSILE 1050
             G+ +  G +       L   +  E  R                               E
Sbjct: 755  VGRTSFKGEQEPSPEERLLRSIFGEKARD-------------------VKDTSLRVPPGE 795

Query: 1051 DRFKNKIEKIQWGDD---MPPGVLRVVKVFVAMKRPIQSGDKMAGRHGNKGIVSRILPCE 1107
                    +++ GD    + PGV  VV+VFVA KR +Q GDK+A RHGNKG+V++ILP E
Sbjct: 796  GGIVVGRLRLRRGDPGVELKPGVREVVRVFVAQKRKLQVGDKLANRHGNKGVVAKILPVE 855

Query: 1108 DMPFLKDGTPVDIVLNPLGVPSRMNVGQIFETHLGWACVGLGKKIKSLINDYKANGDISP 1167
            DMP L DGTPVD++LNPLGVPSRMN+GQI ETHLG A   LG++  S + D     +I  
Sbjct: 856  DMPHLPDGTPVDVILNPLGVPSRMNLGQILETHLGLAGYFLGQRYISPVFDGATEPEIKE 915

Query: 1168 LRSFLEKVIGTGSHTEKIS-DYDDDSVLRVAEQWKSGVPVSTPVFDGADEEAINSMLRMA 1226
            L +    +       E    D  +  VL  AE+     P  +P      EE +  +  + 
Sbjct: 916  LLAEAFNLYFGKRQGEGFGVDKREKEVLARAEKLGLVSPGKSP------EEQLKELFDL- 968

Query: 1227 DLDESGQSILYDGLTGEPFDRPVTVGYIYMLKLNHMVSDKVYARSTGSYSLVTQQPLGGK 1286
                 G+ +LYDG TGEPF+ P+ VG ++++KL HMV DK++ARSTG YSL+TQQPLGGK
Sbjct: 969  -----GKVVLYDGRTGEPFEGPIVVGQMFIMKLYHMVEDKMHARSTGPYSLITQQPLGGK 1023

Query: 1287 SNRGGQRLGEMEVWCIQAYGAAYVLQEMLTIKSDDVVGRTRVYESIVAGNDTFETGTPES 1346
            +  GGQR GEMEVW ++AYGAA+ LQEMLTIKSDD+ GR   Y++I+ G D  E   PES
Sbjct: 1024 AQFGGQRFGEMEVWALEAYGAAHTLQEMLTIKSDDIEGRNAAYQAIIKGEDVPEPSVPES 1083

Query: 1347 FNVLVKEMQALGLSIDLENSRTKNSAKME 1375
            F VLVKE+QAL L +   + +       E
Sbjct: 1084 FRVLVKELQALALDVQTLDEKDNPVDIFE 1112