Pairwise Alignments

Query, 646 a.a., targeting factor for csrBC sRNA degradation from Escherichia coli BL21

Subject, 644 a.a., RNase E specificity factor CsrD from Serratia liquefaciens MT49

 Score =  726 bits (1873), Expect = 0.0
 Identities = 362/648 (55%), Positives = 483/648 (74%), Gaps = 6/648 (0%)

Query: 1   MRLTTKFSAFVTLLTGLTIFVTLLGCSLSFYNAIQYKFSHRVQAVATAIDTHLVSNDFSV 60
           MR TTK SA +TLL  L +F+ L+GCS SF+   Q +   R +++ T++D  ++      
Sbjct: 1   MRFTTKLSALITLLVALAMFLMLMGCSYSFFYVTQERLDRRFESLMTSLDQAMLHESPEE 60

Query: 61  LRPQITELMMSADIVRV--DLLHGDKQVYTLARNGSYRPVGSSDLFRELSVPLIKHPGMS 118
            +  +  +M    IV V  D  H +   Y L      +P    + +R++++PL++HPG +
Sbjct: 61  QKRWLPLVMRPLGIVAVSVDTSHSNLLSYKLPTLNK-QPWDPLNGYRQVALPLMQHPGAA 119

Query: 119 LRLVYQDPMGNYFHSLMTTAPLTGAIGFIIVMLFLAVRWLQRQLAGQELLETRATRILNG 178
           L++ Y DP  +   SL +TA +T +I  ++V+L  ++RWL+ Q  G++ LE RA RILNG
Sbjct: 120 LQITYIDPFASDVRSLQSTAAVTLSIVVMVVILLFSLRWLRDQADGEDRLERRARRILNG 179

Query: 179 ERGSNVLGTIYEWPPRTSSALDTLLREIQNAREQHSRLDTLIRSYAAQDVKTGLNNRLFF 238
           ER S + G + EWP   S ALD LL ++  ARE+ +R+DTLIR++AAQD KTGLNNRLFF
Sbjct: 180 ERESVMQGDMREWPANVSGALDRLLADLAEAREERNRVDTLIRAFAAQDAKTGLNNRLFF 239

Query: 239 DNQLATLLEDQEKVGTHGIVMMIRLPDFNMLSDTWGHSQVEEQFFTLTNLLSTFMMRYPG 298
           DNQL T LE++   G+HGIVMM+RLPDF+ L +  G+  V+E  ++L NLLSTF+MRYP 
Sbjct: 240 DNQLTTQLEEE---GSHGIVMMVRLPDFDTLREIHGNGAVQELMYSLVNLLSTFVMRYPA 296

Query: 299 ALLARYHRSDFAALLPHRTLKEAESIAGQLIKAVDTLPNNKMLDRDDMIHIGICAWRSGQ 358
           ALLARY  SDF  LLPHRTLKEA+ IA QL+ A+D LP+  ++DR+  +HIGI A+RSGQ
Sbjct: 297 ALLARYFHSDFTVLLPHRTLKEADGIASQLVHAIDALPSTALIDREAFLHIGIVAYRSGQ 356

Query: 359 DTEQVMEHAESATRNAGLQGGNSWAIYDDSLPEKGRGNVRWRTLIEQMLSRGGPRLYQKP 418
            TEQV+++AE ATR+A LQG N W +YD  +PEKGRG+V+WRTL+EQ+L+RGGPRLYQKP
Sbjct: 357 TTEQVIDYAEQATRHATLQGENGWYVYDSQVPEKGRGSVKWRTLLEQVLARGGPRLYQKP 416

Query: 419 AVTREGQVHHRELMCRIFDGNEEVSSAEYMPMVLQFGLSEEYDRLQISRLIPLLRYWPEE 478
           AVT EG+VHHRE+M RI+DG +E+  +EYMP+V Q GL+E YDR  +SR++PLL  WPEE
Sbjct: 417 AVTVEGEVHHREIMSRIYDGTQELLPSEYMPLVRQLGLAESYDRQHLSRILPLLTLWPEE 476

Query: 479 NLAIQVTVESLIRPRFQRWLRDTLMQCEKSQRKRIIIELAEADVGQHISRLQPVIRLVNA 538
            LA  ++V+SL++  FQRWLRD+L+QCEKS R+RI+IELAEADV QHI RL+PV++L++ 
Sbjct: 477 TLAFTLSVDSLLQRSFQRWLRDSLLQCEKSHRRRILIELAEADVCQHIDRLRPVLKLLSG 536

Query: 539 LGVRVAVNQAGLTLVSTSWIKELNVELLKLHPGLVRNIEKRTENQLLVQSLVEACSGTST 598
           LG R+AV+QAGLT+VSTS+IK L VEL+KLHPGLVR+I+KR ENQL VQSL  AC GTST
Sbjct: 537 LGCRLAVSQAGLTVVSTSYIKSLPVELVKLHPGLVRSIDKRDENQLFVQSLTGACEGTST 596

Query: 599 QVYATGVRSRSEWQTLIQRGVTGGQGDFFASSQPLDTNVKKYSQRYSV 646
           QV+A  VR+R+EWQTL +RG+ GGQGDFFAS +P+D   KKYS+RY V
Sbjct: 597 QVFAASVRTRNEWQTLKERGILGGQGDFFASPEPIDVGRKKYSRRYRV 644