Pairwise Alignments

Query, 625 a.a., RNA polymerase sigma factor RpoD from Vibrio cholerae E7946 ATCC 55056

Subject, 619 a.a., RNA polymerase, sigma 70 subunit, RpoD (RefSeq) from Shewanella sp. ANA-3

 Score =  915 bits (2364), Expect = 0.0
 Identities = 475/625 (76%), Positives = 537/625 (85%), Gaps = 9/625 (1%)

Query: 1   MDQNPQSQLKQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAP 60
           MD  PQSQLK L+ +GKEQGYLTYAEVNDHLPA++VDS+Q+EDIIQMINDMGI+V E AP
Sbjct: 4   MDHTPQSQLKLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFEEAP 63

Query: 61  DADDLALSDDTTITDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEID 120
           DADD+ +S+D T  DEDAAE AAAAL++VESE+GRTTDPVRMYMREMGTVELLTREGEI 
Sbjct: 64  DADDMMMSEDNT--DEDAAEEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIV 121

Query: 121 IAKRIEDGINQVQSAIAEYPGTIPYILEQFDRVQAEELRLTDLISGFVDPNDMETEAPTA 180
           IAKRIE+GIN VQS++AEYP  I  ILEQ+D+ +A+ELRL+D+ISGFV+P D E   PTA
Sbjct: 122 IAKRIEEGINTVQSSVAEYPQAIAMILEQYDQYEADELRLSDIISGFVNP-DEEDLGPTA 180

Query: 181 THIGSELSEADLADEDDAVVEDEDEDEDEDGDGESSDSEEEVGIDPELAREKFNELRGKF 240
           THIGSELSE DL DEDD     +++DEDEDGDGE  D   + G DPE ARE+F++LR  +
Sbjct: 181 THIGSELSEEDLDDEDD-----DEDDEDEDGDGEGDDDGNK-GPDPEEARERFSQLRTAY 234

Query: 241 QNLQLAVNEFGRDSHQASEASDLVLDIFREFRLTPKQFDHLVETLRTSMDRVRTQERLVM 300
           +N    ++  GR+  ++ +A   + +IF+EFRL PKQFD LV+++R+ MDRVR QERL+M
Sbjct: 235 ENALKIIDAKGREHPESIQALFEIGEIFKEFRLVPKQFDRLVKSMRSMMDRVRVQERLLM 294

Query: 301 KAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKPYVAKVREQEEEIRRSIQKLQMIE 360
           K  VE AKMPKK+F+  FTGNE+N +W D    S KPY   +R  EE+++R   KL  IE
Sbjct: 295 KLCVEQAKMPKKNFVKFFTGNETNLDWFDAEKNSTKPYAEGLRMVEEDVQRCRSKLAAIE 354

Query: 361 QETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 420
           +ET L +  IKDI+RRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG
Sbjct: 355 EETGLVIAAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 414

Query: 421 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR 480
           NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR
Sbjct: 415 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR 474

Query: 481 QMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTL 540
           QMLQEMGREP PEELAERM MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTL
Sbjct: 475 QMLQEMGREPSPEELAERMMMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTL 534

Query: 541 ELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR 600
           ELPLDSAT+ SLK+AT +VLAGLT REAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR
Sbjct: 535 ELPLDSATSESLKSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR 594

Query: 601 QIEAKALRKLRHPSRSEVLRSFLDE 625
           QIEAKALRKLRHPSRSE+L+SFLDE
Sbjct: 595 QIEAKALRKLRHPSRSEILKSFLDE 619