Pairwise Alignments

Query, 491 a.a., RNA polymerase sigma-54 factor (NCBI ptt file) from Shewanella oneidensis MR-1

Subject, 505 a.a., RNA polymerase sigma-54 factor RpoN from Sphingobium sp. HT1-2

 Score =  275 bits (702), Expect = 4e-78
 Identities = 185/499 (37%), Positives = 273/499 (54%), Gaps = 24/499 (4%)

Query: 5   LQLKLGQQLTMTPQLQQAIRLLQLSSLELQQEIQQALDSNPLLEL--------EEEQFDA 56
           L ++  Q L MTPQLQQAI+LL LS+LE++  +   L+ NPLLE         E    D 
Sbjct: 7   LDIRQSQSLVMTPQLQQAIKLLALSNLEIEAFVAGELEKNPLLEQGAADDGGREGSGVDR 66

Query: 57  PSERKQDLADTDFSETS-AQPQEQDNSTVDIAESLTKESLPEELPMDTTWDEVFTASPN- 114
             E     A+T  S+   AQ     +S +D+      E+  ++ P D       + S + 
Sbjct: 67  EVEAPTLAAETGASDDLIAQGLGGADSPLDVDHGA--ETFIDDGPADRMGAGSGSGSLDM 124

Query: 115 --SGSGASREDDMPFQGETSEGLYEHLEWQKNLTPFSETDLAIATAIIDAIDDQGYLTQS 172
              GSG+    D       +  L EHL  Q   T  S  DL IAT +I  I + GYL  +
Sbjct: 125 LGGGSGSGEAVDFDSFANAAPSLQEHLMDQARST-LSGMDLLIATQLIGQISEAGYLEAN 183

Query: 173 TEDILEAMGNPEIELDEVEAVLKRIQHFDPVGVAARDLSECLLIQLSHFSPDTPHLENAR 232
                  +G P   L  VEAVL+ I  FDP GV AR L+ECL +Q    +   P ++  R
Sbjct: 184 LLQTAHGLGVP---LFTVEAVLEVIHSFDPTGVGARSLAECLALQAKEANRYDPCIQ--R 238

Query: 233 MLIKDHLDLIAARDFRLLMRKTKLKEDELRDSIALIQTLNPRPGLLITAVDEEYVVPDVS 292
           +L   +LDL+A      L R   + E++L D I  ++  +P+PGL   +     V PD+ 
Sbjct: 239 LLA--NLDLLAKGALPQLRRICGVDEEDLADMIRELRGYDPKPGLRFASDSATPVTPDLF 296

Query: 293 VSKKNGRWVVELNPDCMPKINVNQQY-AAMARSSKNQADSQFIRGHLQEAKWFIKSLESR 351
           VS+    W +E+N   +P++ VN+ Y   +A   +++A   ++   L  A W +K+L+ R
Sbjct: 297 VSRTREGWGIEVNSATLPRVLVNRTYYVELAGGPQDKASKAWLADCLASANWLVKALDQR 356

Query: 352 NETLLKVANCIVQYQQGFFEYGEEAMKPMVLNDIAEAVEMHESTISRVTTQKYMHTPKGL 411
            +T++KVA+ IV+ Q+ FF  G   +KP+ L  +A+A+EMHEST+SRVT+ KY+  P+GL
Sbjct: 357 QKTIIKVASEIVRQQEDFFRNGVAYLKPLTLRAVADAIEMHESTVSRVTSNKYLSCPRGL 416

Query: 412 FELKYFFSSHVGTDDG-GECSSTAIRAFIKKLVAAENQKKPLSDSKMAQLLAEQGINVAR 470
           +ELKYFF+S V   DG G  S+ A+++ IK L+ AE     LSD  +  LL  +G+++AR
Sbjct: 417 YELKYFFTSGVAAADGDGAVSAEAVKSHIKALIGAEEAHAILSDDTLVDLLRAKGMDIAR 476

Query: 471 RTIAKYREAMLIPPSNQRK 489
           RT+AKYRE+M I  S QR+
Sbjct: 477 RTVAKYRESMGIGSSVQRR 495