Pairwise Alignments

Query, 969 a.a., RNA polymerase-associated protein RapA from Vibrio cholerae E7946 ATCC 55056

Subject, 949 a.a., Superfamily II DNA/RNA helicases, SNF2 family from Pseudomonas stutzeri RCH2

 Score =  900 bits (2325), Expect = 0.0
 Identities = 490/963 (50%), Positives = 650/963 (67%), Gaps = 26/963 (2%)

Query: 6   GQRWISDTESDLGLGTVVALDARTVTLMFAASEENRVYARSDAPVTRVIFNVGDVVDSQQ 65
           GQRWISD+E++LGLGT++  D R +T+++ A+ E R YA   AP+TRV F  GD +   +
Sbjct: 8   GQRWISDSEAELGLGTILTQDGRMLTVLYPATGETRQYATRSAPLTRVRFVPGDEITHFE 67

Query: 66  GWSLQVEQVVEDQGVYTYLGTRVDTEESGVALREIFLSNQIRFNKPQDKLFAGQIDRMDN 125
           GW + V +V +  G+  Y G     E     L E  LSN I+F    D+LFAGQID +  
Sbjct: 68  GWKMTVREVDDVDGLLVYHGLTAQNEAR--TLPETQLSNFIQFRLASDRLFAGQIDPLAW 125

Query: 126 FVLRYRALTNQYQQHKSPMRGLCGMRAGLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTI 185
           F LRY  L +Q  Q +S + GL G+RA  I HQL+IA EV  R APRVLLADEVGLGKTI
Sbjct: 126 FSLRYHTLQHQSAQLQSSLWGLGGVRAQPIAHQLHIAKEVADRIAPRVLLADEVGLGKTI 185

Query: 186 EAGMIIHQQVLTGRAERILIVVPETLQHQWLVEMMRRFNLHFSIFDEERCVEAFSEADNP 245
           EAG+IIH+Q+L+GRA R+LI+VPE LQHQWLVEM RRFNL  ++FD ER +E  S+A NP
Sbjct: 186 EAGLIIHRQLLSGRASRVLILVPENLQHQWLVEMRRRFNLEVALFDAERFIE--SDASNP 243

Query: 246 FETQQYVLCSLDFLRKSRQRFEQALEAEWDLLVVDEAHHLEWHPEKPSREYQVIEALAEQ 305
           FE  Q  L SL++L++  +  + A  A WD+LVVDEAHHL WHPE  S EY+++E LAE 
Sbjct: 244 FEDTQLALVSLEWLKEDERAQDAAFAAGWDVLVVDEAHHLVWHPEGASAEYKLVEQLAEV 303

Query: 306 TPGVLLLTATPEQLGRESHFARLRLLDADRFYDYEAFVKEEEQYAPVADAVTALFSGEKL 365
            PGVLLLTATPEQLG +SHFARLRLLD +RF+D EAF  E   Y PVA+AV  L    +L
Sbjct: 304 IPGVLLLTATPEQLGLDSHFARLRLLDPNRFHDLEAFRAESSSYQPVAEAVQELLDEGRL 363

Query: 366 SDEAKNKITELLSEQDVEPLFKALESHASEDEIALARQELIDNLMDRHGTGRVLFRNTRA 425
           S +A   I + L  +      +AL + A++ +I  A   LI  L+DRHGTGR+LFRNTRA
Sbjct: 364 SQQAHQTIHDFLGAEG-----EALLAAATDGDIE-ASSRLIRELLDRHGTGRLLFRNTRA 417

Query: 426 AIKGFPVRNVHLLPLEIPSQYTTSMRVAGMLGGKLTPEARAMKMLYPEEIFQ--EFEGEE 483
           A++GFP R +H  PL  P++Y         L   L   A     LYPE  FQ  + +GE 
Sbjct: 418 AVQGFPERQLHPYPLPCPAEY---------LELPLGEHAE----LYPEVAFQSQQDDGEA 464

Query: 484 SS-WWQFDSRVNWLLEKVKAKRSEKILVIASRASTALQLEQALREREGIRATVFHEGMSI 542
           S+ WWQFD RV WL++ +K  +  K+LVI + A TAL LE ALR R GI ATVFHEGMSI
Sbjct: 465 SNRWWQFDPRVEWLIDTLKMLKKFKVLVICAHAETALDLEDALRVRSGIPATVFHEGMSI 524

Query: 543 IERDKAAAYFAQEEGGAQVLICSEIGSEGRNFQFANQLVMFDLPFNPDLLEQRIGRLDRI 602
           +ERD+AAAYFA E+ GAQVLICSEIGSEGRNFQF++ LV+FDLP +PDLLEQRIGRLDRI
Sbjct: 525 LERDRAAAYFADEDFGAQVLICSEIGSEGRNFQFSHHLVLFDLPAHPDLLEQRIGRLDRI 584

Query: 603 GQKRDIDVYVPYLTETSQAILARWFQEGLNAFAETCPTGRAVYDAFAERLIPILAAGGGE 662
           GQ+  I ++VPYL  + Q  L  W+ + LNAF  TCPTG A+   F  +L+  L  G  +
Sbjct: 585 GQQHTIQLHVPYLETSPQERLFTWYHQALNAFLNTCPTGNALQHRFGPQLLAQLEEGDDD 644

Query: 663 ELEVIIEESAKLNKTLKSQLEVGRDRLLEMHSNGGEKAQQIAEQIAKTDGDTNLVTFALS 722
             +++I+E+    + L+++L  GRDRLLE++S GGE+ + + E I + D    L  +   
Sbjct: 645 AYQLLIDEARAERERLEAELHSGRDRLLELNSGGGEQGKALVEAIEEQDDQFALPIYMEQ 704

Query: 723 LFDAIGLHQEDRGENALVVTPAEHMMVPSYPGLPYEGATITFDRDTALSREDMHFISWEH 782
           LFDA G+  ED  ENALV+ P+E M+  S+P    E  TIT+DR+ AL+REDM F++WEH
Sbjct: 705 LFDAFGIDSEDHSENALVLRPSEKMLDASFPLGDDEAVTITYDREQALAREDMQFLTWEH 764

Query: 783 PMVQGGIDLLMSEGVGTCAVSLLKNKALPVGTILLELVYVVDAQAPKRSGISRFLPVSPI 842
           PMVQGG+DL++S  +G  AV+L+KNKAL  GT+LLEL++V +  AP+   +SRFLP   +
Sbjct: 765 PMVQGGMDLVLSGSMGNTAVALIKNKALKPGTVLLELLFVSEVVAPRALQLSRFLPPLAL 824

Query: 843 RILMDARGNDLSSQVEFESFNRQLSPVNRHLASKLVSSVQHDVHRLITASETAVEPRVSA 902
           R L+D  GNDL+S+V F++ N QL  V R  A+K V + +  +   I A+E  + PR + 
Sbjct: 825 RCLLDGNGNDLASKVAFDTLNDQLESVPRASANKFVQAQRDVLAMQIAAAEAKIAPRHTE 884

Query: 903 IREQAQRDMQQSLNSELERLLALKAVNPNIRDEEIEVLDQQIKELTGYIAQAQYQLDSLR 962
              +A+R ++  L+ EL RL+AL+AVNP++RD EIE L QQ +E    + +A  +L+++R
Sbjct: 885 RVAEAKRKLKAGLDEELARLVALQAVNPSVRDSEIEALRQQREEGLAALDKAALRLEAIR 944

Query: 963 LIV 965
           ++V
Sbjct: 945 VLV 947