PSIBLAST alignment of GI: 254780142 and protein with PDB id: 1l9u

gi|21466006|pdb|1L9U|D Chain D, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution Length = 1524
>gi|21466012|pdb|1L9U|M Chain M, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution Length = 1524
 Score =  309 bits (792), Expect = 2e-81,   Method: Composition-based stats.
 Identities = 111/254 (43%), Positives = 149/254 (58%), Gaps = 35/254 (13%)

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-----EKYQILTEEEYVE----------------AVSQFG 174
           +E+VLYF  Y+V+DP  + L     EK Q+LT+EEY E                A+ + G
Sbjct: 123 LEQVLYFNKYIVLDPKGAVLDGVPVEKRQLLTDEEYRELRYGKQETYPLPAGVDALVKDG 182

Query: 175 QD---------QFIAMMGADAIYELLIALD---LQNLALTLRDQLSK--SSSIFRRKKII 220
           ++           ++ M   A+Y     +    L+     LR  LS       +R  +++
Sbjct: 183 EEVVKGQELAPGVVSRMDGVALYRFPRRVRVDYLRKERAALRIPLSAWVEKEAYRPGEVL 242

Query: 221 KRLKIVDSFITSGN 234
             L     F    +
Sbjct: 243 AELSEPYLFRAEES 256