Pairwise Alignments

Query, 1196 a.a., transcription-repair coupling factor from Bifidobacterium breve UCC2003

Subject, 1160 a.a., transcription-repair coupling factor (RefSeq) from Shewanella loihica PV-4

 Score =  580 bits (1496), Expect = e-169
 Identities = 312/648 (48%), Positives = 431/648 (66%), Gaps = 20/648 (3%)

Query: 484  ALLTERDLTGRSSAVAVAKTPKRR--RKAI--DLVELKKGDYVVHEQHGIGRFIEMRQRT 539
            AL+ E +L G+  A    +  +R+  + A+  DL ELK G  +VH  HG+  +  +   T
Sbjct: 449  ALVCETELFGQRIAQQRRRDKQRQVSQDALIKDLAELKVGQPIVHLDHGVALYQGLE--T 506

Query: 540  IGTGANKTTREYLVIEYAPSKRGAPADKLFIPTDQLDQVSKY-IGAE-APKLNKLGGSDW 597
            + TG      EYL +EYA        DKL++P   L+ +S+Y +GA+ AP+LNKLG   W
Sbjct: 507  LDTGG--LVAEYLKLEYAGG------DKLYVPVASLNLISQYSVGADDAPQLNKLGNESW 558

Query: 598  AATKAKARKHVHEIADDLIKLYSARQRAKGFAFSPDTPWQKELEDAFPYQETADQLTTID 657
               K KA + + ++A +L+ +Y+ RQ   G A   D     +   +FP++ET DQ T ID
Sbjct: 559  TKAKRKAIEKIRDVAAELLDVYARRQARPGEACRLDREEYAQFAGSFPFEETVDQETAID 618

Query: 658  EVKSDMEKPVPMDRLICGDVGFGKTEIAVRAAFKAVQDGKQVAVLVPTTLLVQQHQETFT 717
             V +DM  P+ MDRL+CGDVGFGKTE+A+RAAF AV DGKQVA+LVPTTLL QQH E F 
Sbjct: 619  AVLTDMCSPISMDRLVCGDVGFGKTEVAMRAAFVAVNDGKQVAILVPTTLLAQQHYENFK 678

Query: 718  DRFEGFPVNVAAMSRFQTTKEINATIEGLENGTVDVVIGTHKLLNPKIKFKDLGLVIIDE 777
            DRF  +P+ +  MSRF+T KE  A ++ LE G VD+VIGTHKLL  + KF++LGL+IIDE
Sbjct: 679  DRFADWPIKIEVMSRFKTAKEQQAVLKQLELGQVDIVIGTHKLLQSEAKFENLGLLIIDE 738

Query: 778  EQRFGVEHKETLKALRTNVDVLSLSATPIPRTLEMAVTGIREMSTLATPPEDRLPVLTYV 837
            E RFGV  KE +KALR N+D+L+L+ATPIPRTL MA++G+R++S +ATPP  RL V T+V
Sbjct: 739  EHRFGVRQKEKIKALRANIDILTLTATPIPRTLNMAMSGMRDLSIIATPPAKRLAVKTFV 798

Query: 838  GAYEDAQVTAAVRRELLRGGQVFYVHNRVQDISSIADKIHTLVPESRVGIAHGKMGEKQL 897
              Y+DA V  A+ RE+LRGGQV+++HN V+ I   A +I  L+PE+RV  AHG+M E+ L
Sbjct: 799  REYDDATVREALLREILRGGQVYFLHNSVETIEKRAREIEALLPEARVVTAHGQMRERDL 858

Query: 898  DQIIRDFWHRDIDVLVCTTIIETGLDISNANTLIVDHADRFGLSQLHQLRGRVGRGRERA 957
            ++++ DF+H+  +VLVCTTIIETG+D+ +ANT+I++ AD FGL+QLHQLRGRVGR   +A
Sbjct: 859  EKVMSDFYHQKYNVLVCTTIIETGIDVPSANTIIIERADNFGLAQLHQLRGRVGRSHHQA 918

Query: 958  YAYFLYDPSKPMTEQSHDRLATIAQNTALGSGFDVAMKDLELRGTGNLLGDEQSGHIEGV 1017
            YAY +    K MT+ +  RL  I     LG+GF +A +DLE+RG G LLGDEQSGHI  +
Sbjct: 919  YAYLMMPHPKRMTKDAIKRLEAIGALEDLGAGFMLATQDLEIRGAGELLGDEQSGHISKI 978

Query: 1018 GFDLYVRMVSEAVEKYKEPDE----DVEPVSVSIDLPIEASIPIDYIDSDKLRLEAYRKL 1073
            GF LY+ M+ +AV+  KE  E     +      IDL I A +P DY+    +RL  Y+++
Sbjct: 979  GFTLYMEMLEDAVKSLKEGKEPSLDQMLRGQCEIDLRIPALLPEDYVGDVNIRLSLYKRI 1038

Query: 1074 ASARNEADLKDLKEELTDRYGKPPVEFETLFDVARLKFKARKLGVSEI 1121
            A+      L +LK EL DR+G  P   + L +V+  K +A  LG+++I
Sbjct: 1039 ANCATAQALDELKVELIDRFGLLPQATKNLMEVSLFKHQATALGIAKI 1086



 Score = 97.4 bits (241), Expect = 6e-24
 Identities = 63/213 (29%), Positives = 103/213 (48%), Gaps = 15/213 (7%)

Query: 118 ETLPHERLSPRADTVASRMAVFRRLKHPSDANPMFGPIRILVMPIRSLIQPVVQGLGDVE 177
           ETLP++  SP  D V+ R+    R+       P  G   ++V     +++   Q      
Sbjct: 79  ETLPYDSFSPHQDLVSQRLETLSRI-------PSAGHSLVIVPMSTLMVKLPPQSFLTGN 131

Query: 178 PLVFTVGEDLPLDEAAKRLIENAYTRVELVMDRGEFAVRGGILDVFPPTAPHPVRIEFFG 237
            L+ + G++ PL+    +L+   Y  VE V + GEFAVRG I+D+FP  A  P RIE F 
Sbjct: 132 VLLLSKGDNYPLEAVRSQLVNTGYHHVEQVYEHGEFAVRGSIIDLFPMGAQSPYRIELFD 191

Query: 238 DEIDTIKEFHASDQRTYGEGLKTIWATACRELQLTDAV------RTRAKALIGSIPNAED 291
           DE+++I+EF    QR+ GE +++I     +E    DA       R R +  +  +   E 
Sbjct: 192 DEVESIREFDPETQRSSGE-IESIRLLPAKEFPTNDAAIEGFRQRYRRQFEV-VVKEPES 249

Query: 292 MLESIANAIPVEGMESLMPALVDHLEPVGSMLP 324
           + + ++  +   G+ES +P   D    +   LP
Sbjct: 250 IYQMVSRKVMPAGIESYLPLFFDETASLFDYLP 282