>ref|NP_224128.1| TYPE III RESTRICTION ENZYME [Helicobacter pylori J99]
          Length = 969

 Score =  395 bits (1014), Expect = e-111
 Identities = 318/1036 (30%), Positives = 518/1036 (49%), Gaps = 137/1036 (13%)

Query: 24  FEKQDYQQECIYNIITLLDGFDFKR--HDALNLKDCLNQFHAACEIPVKNVSG------- 74
           F++ DYQ++C   I+ +  G D +   +D   + + + +  A  ++ ++N+         
Sbjct: 5   FKRLDYQEQCRDQILGVFKGIDLREPENDIQRIANPVFEIGAIKDLLLENIENLRSKQKI 64

Query: 75  ---------KLNVDVLMETGTGKTFTYLNLIFALHKAYGQNKFIIFVPRKAILESVKQNI 125
                     LN D+LMETGTGKTF +L  ++ALHK Y  +KFI+  P  AI   V ++I
Sbjct: 65  TQGSVGINQSLNCDILMETGTGKTFCFLECVYALHKNYHLSKFIVLAPSNAIKLGVLKSI 124

Query: 126 RLTKDYFYLEFKR-HLKTYTYEGVKSPSNIINHYIKNQDELSVLLLTNSAIDKEGNILNK 184
            +T+++F  E+   HL++Y         ++    + +  +  VL++T SA +KE N +N+
Sbjct: 125 EITREFFKSEYSNTHLESY--------EDVERFILASNHKCCVLVMTFSAFNKEKNTINQ 176

Query: 185 N---SENLFN-TKSIFENIADLKPISIIDEPHLLKGEAFGKYFGKIGALY-FRFGATFAK 239
           +   + NLFN  KS  + +A ++PI I+DEPH   G+   KY  ++ AL   RFGATF K
Sbjct: 177 SCLENTNLFNGAKSYMQALASMRPIVIMDEPHRFLGDKTKKYLEQLNALITLRFGATF-K 235

Query: 240 EKEHALSNVAFCLDSISAFRNYLVKQIRIHSVMQDAQSPFLLNADSKSAKIAFYKAGILK 299
           +  H   N+ + LDS  AF   LVK I + SV +  +    L   +K    A      L+
Sbjct: 236 DDYH---NLIYALDSKKAFDCALVKSISVASVGESDEYFLELKEANKKQNEATINYTTLE 292

Query: 300 Q----ITLSKGEDLGKIN--ASFNGVSLVKTAKDKAYLSNGATL---EKASYK-LAQDEI 349
                + +   ++LG +   ++     + K  K +    NG  L   +K  +  L + E 
Sbjct: 293 NKIQSVKVKTHDNLGALTHISALEDYIVEKITKTEIRFLNGFNLLLDQKEPFSHLLEGEQ 352

Query: 350 SALLEKAIDLHFEKEAFLFDQNIKALSLFFIPKIEDFRQIDNKGTPFIKTEFERLYKLKR 409
             +L++AI  HFE+E  LF + IKAL + FI  +  +   +N+    +   FE+LY+ K 
Sbjct: 353 EVMLKEAIKSHFEREEGLFKKGIKALCMVFINGVNSYLS-ENEKPAKLALLFEKLYQQKL 411

Query: 410 ASILARENLSPSYKEYLKRDFDESGNLRVHQGYFSGDSVALNKGKKESKKEDIEANDIKM 469
             +L ++ L  +Y+ YL+R  D    L+VH GYF+           +SKKE  E   I +
Sbjct: 412 EEVL-KKPLDENYRAYLERTKDAI--LKVHGGYFA-----------KSKKESDEVQVIAL 457

Query: 470 ILSEKEKLLSFQTPLRFIFSVWALQEGWDNPNIFTLIKLANSTSETSRHQQVGRGLRIAI 529
           IL EKEKLLSF + LRFIFS WALQEGWDNPN+ T+ KLA S+S  ++ QQ+GRGLR+A+
Sbjct: 458 ILKEKEKLLSFDSDLRFIFSQWALQEGWDNPNVMTICKLAPSSSNITKLQQIGRGLRLAV 517

Query: 530 NQEGKRVTHGFLKGNDNAFYKINYLDMLVSGEEVGFIEGLQKEIEASSFIGGGNALDRED 589
           N +G+R+T          F  +N L ++V   E  F+  +Q+EI   S I        E+
Sbjct: 518 NDKGERITK-----EHADFDFVNELVVIVPQVEGDFVGAIQQEISEHSLI--KQVFSAEE 570

Query: 590 LAKLGLNEREINKLFVEL-------ENSNALEFDETNNAYKII--APICETMQNNE---- 636
           L K G+ ++    +  E        E ++   F  T N  + +   P  E +++ +    
Sbjct: 571 LEKSGMVKKGYYGVLFETLEGLGFGEKTDDENFKLTLNQNEFLKKEPELEKLKDEKYLDF 630

Query: 637 ERIKDFLSDEEYHAVLSAFKMAENPTNKRDQIINANQPQEKVKIRQNLAKEFKELWQTIN 696
           E++KDFL D     ++  F++     NK +      +  EK+KI +   K+F+ LW  +N
Sbjct: 631 EKLKDFLKDR----LIGHFRV----RNKNE------RKTEKIKINKENFKKFETLWAGLN 676

Query: 697 AQSQLSYQNIQKTKLIESIAKAFNES-HVSAEVI------KFESKRYDPQTNRIITEQSS 749
            Q++++Y  I    LI+ I K  N S +VS++++      K E+   + +T     + + 
Sbjct: 677 HQARIAYA-IDSESLIDEIVKNINSSFNVSSKIVSVTTHKKVETMGNNAKTEIFERKSAC 735

Query: 750 TLKIRDYANALQKEINALLLDFAKDERLPLKFTLELYNALNKEHFTNSPKKAFKLLKGII 809
              + ++ +AL  ++       AK         LE  +         + ++  K L+ + 
Sbjct: 736 VWSLHEFISALSNKVKLSFKSVAK--------VLENIDENKFNEIKKNEQEGLKRLEELF 787

Query: 810 KDKLHENLLSCVSYGFCQNAFSNTAFDKTDPLYCEDGSPKNEI------EKHKIGKYKSA 863
            + +++N+   +SY   +    N    K D  Y E G  +  +      +K++I K  SA
Sbjct: 788 LEIIYQNIKDKISYQMRETTIKNR---KNDAFYDEKGEIREFLDGSLGADKYEI-KNSSA 843

Query: 864 QTPSPNYLYETII-YDSKIEEEVSEEGVQTLEGKSIEVFAKLPKFKIPTPY-KNYEPDFA 921
           Q      LYE  +  DS+IE++  EE   T     I VF KLP+ KIP    + Y PDF 
Sbjct: 844 Q---EKCLYENFMQVDSEIEKDTIEESNDT----KIIVFGKLPRVKIPIGLNQTYSPDFG 896

Query: 922 YLLKDEKGAKIFFVCETKGYEKESDIPPDEKRKIEYAKKFFETLSQNLKNAKKEIRVVFA 981
           Y++ +    K+  V ETKG +K+S++ P+EKRKI  AKKFFE L       K+ + + + 
Sbjct: 897 YVV-ENNDKKVLLVVETKGVDKKSELRPEEKRKISTAKKFFEALK------KQGVNIEYK 949

Query: 982 TRINKQDLFNTLKNAL 997
           T++N   L   +   L
Sbjct: 950 TKLNNDQLSALINEVL 965