BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0342.0022.p (1115 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|ZP_00046096.1| COG4096: Type I site-specific restriction-mod... 875 0.0 ref|NP_617324.1| type I site-specific deoxyribonuclease protein ... 847 0.0 ref|NP_358386.1| Type 1 restriction modification system endonucl... 826 0.0 ref|NP_345379.1| type I restriction-modification system, R subun... 799 0.0 ref|NP_870065.1| type I restriction enzyme, R protein [Pirellula... 773 0.0 >ref|ZP_00046096.1| COG4096: Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Lactobacillus gasseri] Length = 1113 Score = 875 bits (2260), Expect = 0.0, Method: Compositional matrix adjust. Identities = 478/1123 (42%), Positives = 697/1123 (62%), Gaps = 24/1123 (2%) Query: 3 ANFEFLLGQPEYKLFANACIEAERVLATSPAMAAVGSRKAFELAVKWVYAADNTITMPYK 62 NF++LL +P++K F I AE+V PA + + R+A ELAVKW+Y+ D + PY+ Sbjct: 5 TNFDYLLEEPQFKDFVEIAIAAEKVAVIDPATSVIDCRRAMELAVKWMYSVDKDLRTPYQ 64 Query: 63 DNLQALIHEPTFKFAMENQTWGKLPYIIKLGNLAVHTDKXXXXXXXXXXXXXXFEFIQWL 122 D L LI+ FK ++ TW L I +LGN+AVHT++ F F L Sbjct: 65 DKLVTLINTLDFKDIVDPNTWQGLDLIRRLGNVAVHTNRKVSLDEAVLCLKALFSFFDML 124 Query: 123 DYCYGVNYEERHFAEDNIPVEKVVLDEARIKEKDSLI--EQKESEIEALRAQIAAMSDRL 180 DYCYG NY+++ F +K ++ + R++ ++ E+ ++ L + ++ + + Sbjct: 125 DYCYGSNYQKKDF-------DKSLVGKYRLEFIPKVVSAEKATFSLDKLTKKNKSLQESM 177 Query: 181 TADKEQHQEERHFTPEDISEFRTRKKYIDVDLKLLGWTLGDDAREEVELYGMPNDEGKGY 240 TA ++ ++ + P ISEF+TRK YID L GW G + EVEL GMPN G GY Sbjct: 178 TAQRKAQEDSYNPKPFGISEFKTRKIYIDAMLAEAGWVEGQNWLNEVELKGMPNKAGIGY 237 Query: 241 ADYVLYGKDGLPLAIIEAKRTSKDPKAGTHQAKLYADCLERMTGRRPMMFTSNGFETNLW 300 ADYVLY PLA+IEAK+T KD G QAKLYAD LE+ GRRP++F SNGFET + Sbjct: 238 ADYVLYDDAHQPLALIEAKKTCKDVAVGRQQAKLYADLLEKKYGRRPVVFLSNGFETRII 297 Query: 301 DDVTSPQRKVSGVFSKSDLQKLMNRRNERKVLDEVVIDDNITDRYYQKEAIRAVCDNIMT 360 D+ P+R+VS ++SK DL+KL N + R+ L +++DDNI RYYQK AI+AVC++ Sbjct: 298 DN-QYPERQVSSIYSKRDLEKLFNLQKVRQPLTNIIVDDNIAGRYYQKAAIQAVCESFSK 356 Query: 361 GHRR-SLLVMATGTGKTRTASSLTDVLSRGGYVTNILFLADRKALVKQAKDDFKNYLPDM 419 +RR +LLVMATG+GKTRTA L VL G++ ++LFLADR ALV QAK F N LPD+ Sbjct: 357 ENRRKALLVMATGSGKTRTAVGLVKVLLNAGWIKHVLFLADRDALVTQAKRSFVNLLPDL 416 Query: 420 SLCNLLSNKDDKTARIVFSTYPTMLNAIDRAKSDDGKRLFTPAHFDLIIVDEAHRSIFKK 479 S NL+ +K + AR VFSTY TM+N ID A DD K+L+T HFDLIIVDEAHRSI+ K Sbjct: 417 SSTNLVEDKSNYNARCVFSTYATMMNVIDTATDDDKKKLYTAGHFDLIIVDEAHRSIYNK 476 Query: 480 FRAIFEYFDGYVVGLTATPKTDVDRNTYDFFEMESGVPTYAYPYETAVEMDRVLVPYHNI 539 +R IF YFD +VGLTATPK D+D+NTY F +E GVPTY Y AV+ D LVPY +I Sbjct: 477 YRNIFTYFDAPLVGLTATPKDDIDKNTYSIFNLEDGVPTYGYDLAQAVD-DGYLVPYKSI 535 Query: 540 EVTTKVLEQGITYDTLSADDKARYEEDFTEEDGEMPEFIPSPAINDFIFNQATVDQVLED 599 E K +E GI YD LS +K YEE FT+EDG++P+ I S +N ++FN+ T+ +VL Sbjct: 536 ETHLKFMENGINYDDLSTQEKEEYEETFTDEDGDLPKKIDSGKLNKWLFNKDTIRKVLNI 595 Query: 600 LMTQGIKVSGGDRLGKTIIFAQNKNHAQYIVERFNKLYPQYKGD-----FAKRIVSEDDY 654 LM QG+K+ G+++GKTIIFA+N HA+ I++ FN+ YPQ+ + +A I + +Y Sbjct: 596 LMNQGLKIDYGEKIGKTIIFAKNHRHAEEILKVFNEEYPQFSRNTHGQPYATVIDNYTNY 655 Query: 655 TQSLIDDFKLANKSPYIAVSVDMLDTGIDVPEIVNLVFFKRIRSKTKFWQMIGRGTRLCK 714 +QS ID+F +K P IAVSVDMLDTGIDVPE +NLVFFK++ SK KF+QMIGRGTRLC Sbjct: 656 SQSAIDEFSDPDKLPQIAVSVDMLDTGIDVPECLNLVFFKKVMSKAKFFQMIGRGTRLCP 715 Query: 715 DLFGEGEDKTHFVIFDYLGNFEFFRQHKEGLQGNEAYSLSEVIFAKRIRLIQHLQQAVFI 774 L +G+DK F IFD+ NF FFR K G + +L +F ++ L++ LQ+ + Sbjct: 716 HLL-DGKDKQEFYIFDFCDNFHFFRMGK-GHEAGVQETLQSALFNLKMELVRKLQEEPYQ 773 Query: 775 DEPYQSIRTDLIEIVIGQIQALNTELVSVKMQLQYIEKYKHQAAFVCLLEQDQSNLIKYV 834 + + R L+E + +++ LN +VK + Y++K+ + L +D N K + Sbjct: 774 TDDFNQYRKTLVEDLCKKVKELNRNNFAVKQHIAYVDKFSQIENYNNLTYEDIVNTKKEL 833 Query: 835 APIVYMDDADEHAKRFDNLLYGLMLAQAEEAPQYKKSKKQLIDVATTLLQRATIPQVRDK 894 +P++ D+ + +A RFD L+Y + LA+ + Y + K L + + L TIPQV++K Sbjct: 834 SPLILPDNDEPNALRFDALVYKMELAKMSQE-SYGRLKIDLCNKVSKLSDLMTIPQVKEK 892 Query: 895 LTLIQTIGTEEFWDSANLLDFEKVRQELRGLIKFIVDEGGKNPIYTNLADEVLEVHEGKA 954 LI+ I E+ +S ++ D E +RQ +R LI+++ +G YTN AD VL+ A Sbjct: 893 KDLIKEILQPEYVESTDVKDLEYIRQSIRDLIQYLPKKG--TVYYTNFADTVLDSTIHDA 950 Query: 955 MYEAYTFEDYKLKVNRYIEKNRDNLVIHKLRNNIPLTALDYEALEKIFTGELGTAEDYER 1014 E T ++YK K YI++++ ++ K+R+N PL++ D + LE I +LG+ E+Y++ Sbjct: 951 ELETDTLKNYKAKAEFYIKQHQSENLMVKIRDNEPLSSQDLKELESILWQKLGSKEEYQK 1010 Query: 1015 EFKDTPFGLLVRKIAKLEYAAATAAFSEFINDQSLSQGQIVFVKKVIDYIVQNGYIDNVT 1074 E + G VR I L+ AA AF+++++ L++ QI F+ ++I+YIV+NG + ++ Sbjct: 1011 EIGNKAPGEFVRSIVGLDMHAAKKAFNKYLDTVPLNKQQIYFINEIIEYIVKNGTLTDMH 1070 Query: 1075 ELTKPPFDKPQSFVKLF--DGTKQRRLVETVAQIKENAVKIIG 1115 L + PF S +LF D T ++ + +I NA ++ Sbjct: 1071 VLQESPFTNQGSISELFESDITIWLKVKTAIDEINSNAGVVVA 1113 >ref|NP_617324.1| type I site-specific deoxyribonuclease protein R [Methanosarcina acetivorans str. C2A] gb|AAM05804.1| type I site-specific deoxyribonuclease protein R [Methanosarcina acetivorans str. C2A] Length = 1146 Score = 847 bits (2188), Expect = 0.0, Method: Compositional matrix adjust. Identities = 480/1147 (41%), Positives = 692/1147 (60%), Gaps = 52/1147 (4%) Query: 4 NFEFLLGQPEYKLFANACIEAERVLATSPAMAAVGSRKAFELAVKWVYAADNTITMPYKD 63 NF FL + E+ A +A + P A +R+A ELAV+W+Y D T+ +PY+D Sbjct: 3 NFAFL--ETEWPSLYEAAEKASNAVYPDPRTACFYARRALELAVQWMYKHDYTLLLPYQD 60 Query: 64 NLQALIHEPTFKFAMENQTWGKLPYIIKLGNLAVHTDKXXXXXXXXXXXXXXFEFIQWLD 123 NL AL+HEPTFK A + K II+LGN AVH++ F WL Sbjct: 61 NLSALVHEPTFKKAAGEAIFNKARIIIRLGNQAVHSNSTVLLHDSLTAVSELFHISYWLA 120 Query: 124 YCY--------GVNYEERHFAEDNIP---VEKVVLDEARIKEKDSLIEQKESEIEALRAQ 172 Y G+++ + +P +E++ EA ++EKD +K SE+ A ++ Sbjct: 121 RTYARKEKPEPGLSFNPDELPKTTVPKQTIEQLQKLEASLQEKD----EKLSELLADKSA 176 Query: 173 IAAMSDRLTADKEQHQEERHFTPE--DISEFRTRKKYIDVDLKLLGWTLGDDAREEVELY 230 + RL A+ + +E P+ D SE TRK ID+ LK GW L +E E+ Sbjct: 177 MDEELKRLRAEVAKAKEASTLLPDTHDYSEAETRKSLIDLLLKEAGWPLDKTQDKEFEVL 236 Query: 231 GMPNDEGKGYADYVLYGKDGLPLAIIEAKRTSKDPKAGTHQAKLYADCLERMTGRRPMMF 290 GMPN G GY DYVL+G DG PLA++EAKRT+KDP+ G QAKLYA+CLE G+RP++F Sbjct: 237 GMPNKNGVGYVDYVLWGDDGKPLALVEAKRTTKDPQVGQQQAKLYANCLENQFGQRPVIF 296 Query: 291 TSNGFETNLWDDVTSPQRKVSGVFSKSDLQKLMNRRNERKVLDEVVIDDNITDRYYQKEA 350 SNG+ET +WDD P R+V G + K++L+ L+ RR+ R+ L E I+ I +RYYQ A Sbjct: 297 YSNGYETWIWDDSLYPPRQVQGFYKKAELELLIQRRSSRRPLSEAEINSAIVERYYQTRA 356 Query: 351 IRAVCDNI-MTGHRRSLLVMATGTGKTRTASSLTDVLSRGGYVTNILFLADRKALVKQAK 409 IR + + R++L+VMATG GKTRT +L D+L R +V +LFLADR ALV QA Sbjct: 357 IRRIGEAFEQDNDRKALIVMATGAGKTRTVIALCDLLMRCNWVKRVLFLADRVALVNQAV 416 Query: 410 DDFKNYLPDMSLCNLLSNKDDKTARIVFSTYPTMLNAIDRAKSDDGKRLFTPAHFDLIIV 469 + FK +LPD + NL++ KD + R+ STYPTM+ I+ + + G+R F HFDL+I+ Sbjct: 417 NAFKRHLPDSAPVNLVTEKDTE-GRVFVSTYPTMMKQIE--EINGGQRRFGVGHFDLVII 473 Query: 470 DEAHRSIFKKFRAIFEYFDGYVVGLTATPKTDVDRNTYDFFEMESGVPTYAYPYETAVEM 529 DEAHRS+FKK+RAIF+YFD +VGLTATPK +++RNTY F++E GVPT AY E AV+ Sbjct: 474 DEAHRSVFKKYRAIFDYFDSLLVGLTATPKNEIERNTYSLFDLEPGVPTDAYQLEEAVK- 532 Query: 530 DRVLVPYHNIEVTTKVLEQGITYDTLSADDKARYEE-DFTEEDGEMPEFIPSPAINDFIF 588 D LVP + V K QGI YD LS +DK ++E D+ +EDGE+PE + + A+N ++F Sbjct: 533 DGFLVPPKAVSVPLKFQRQGINYDELSDEDKEQWEALDWGDEDGEIPERVEAEAVNKWLF 592 Query: 589 NQATVDQVLEDLMTQGIKVSGGDRLGKTIIFAQNKNHAQYIVERFNKLYPQYKGDFAKRI 648 N+ TVD+VL LM +G+KV+GGDRLGKTI+FA+N+ HA+Y+ ERFN YP +KG+FA+ I Sbjct: 593 NKDTVDKVLAHLMERGLKVAGGDRLGKTILFAKNQAHAEYVAERFNVNYPHFKGEFARVI 652 Query: 649 VSEDDYTQSLIDDFKLANKSPYIAVSVDMLDTGIDVPEIVNLVFFKRIRSKTKFWQMIGR 708 + +Y QSLID+F + K P+IA+SVDMLDTGIDVPE+VNLVFFK +RSKTKFWQM+GR Sbjct: 653 TFKTEYAQSLIDNFSIKEKDPHIALSVDMLDTGIDVPEVVNLVFFKLVRSKTKFWQMVGR 712 Query: 709 GTRLCKDLFGEGEDKTHFVIFDYLGNFEFFRQHKEGLQGNEAYSLSEVIFAKRIRLIQHL 768 GTRLC DLF GEDK F +FDY N EFF Q+ E +G SL +F R+ L+ L Sbjct: 713 GTRLCPDLFEPGEDKRFFYLFDYCQNLEFFSQNPETTEGALGDSLGTRLFKSRLELLSEL 772 Query: 769 QQAVFID--------------EPY--QSIRTDLIEIVIGQIQALNTELVSVKMQLQYIEK 812 + + D EP +R + E + +I ++N + V+ + + +E+ Sbjct: 773 DKKLEADSDCEVGTETREIYGEPITEAEVRHSIAETLHSEIASMNLDNFVVRPKRRLVER 832 Query: 813 YKHQAAFVCLLEQDQSNLIKYVAPIVY-MDDADEHAKRFDNLLYGLMLAQAEEAPQYKKS 871 Y A++ L +D S L VA + M+ E AKRFD L+ L LA P +++ Sbjct: 833 YSRSEAWLKLSGEDLSELSHEVAGLPSEMEPEAEEAKRFDLLVLNLQLALLRAEPAFERL 892 Query: 872 KKQLIDVATTLLQRATIPQVRDKLTLIQTIGTEEFWDSANLLDFEKVRQELRGLIKFIVD 931 + Q+ D+A L +++ IP VRD++ LI + T+E+W++ E +R+ LR ++K I + Sbjct: 893 RNQVRDIAGLLEEKSAIPMVRDQMALILDVQTDEWWENVTTPMLETLRRRLRDIVKLI-E 951 Query: 932 EGGKNPIYTNLADEVLEVH--EGKAMYEAYTFEDYKLKVNRYIEKNRDNLVIHKLRNNIP 989 + + PIYT+ DE+ + E A FE ++ K ++ +++D VIHKLR N P Sbjct: 952 KHRRKPIYTDFEDEMGSENNVELPGFAAAGDFEKFRAKTRAFLLEHQDQAVIHKLRMNKP 1011 Query: 990 LTALDYEALEKIFT-GELGTAED--YEREFKDTPFGLLVRKIAKLEYAAATAAFSEFIND 1046 LTA D + LE+I + LG E+ + +E + GL VR + L+ AA +F+ F+ Sbjct: 1012 LTAADLDELERILSESGLGGPEEIAHAKEVSNG-LGLFVRSLIGLDREAAKQSFARFLAG 1070 Query: 1047 QSLSQGQIVFVKKVIDYIVQNGYIDNVTELTKPPFD--KPQSFVKLFDGTKQRRLVETVA 1104 ++L QI F+ ++ID++ ++G +D L + PF PQ LF + L+ + Sbjct: 1071 KTLVANQIEFINRIIDHLTEHGAMDAAL-LYESPFTDLTPQGPDGLFTSAQVDELIAALE 1129 Query: 1105 QIKENAV 1111 QI A+ Sbjct: 1130 QITATAL 1136 >ref|NP_358386.1| Type 1 restriction modification system endonuclease R [Streptococcus pneumoniae R6] pir||H97970 type I site-specific deoxyribonuclease (EC 3.1.21.3) hsdR [imported] - Streptococcus pneumoniae (strain R6) gb|AAK99596.1| Type 1 restriction modification system endonuclease R [Streptococcus pneumoniae R6] Length = 1116 Score = 826 bits (2133), Expect = 0.0, Method: Compositional matrix adjust. Identities = 456/1118 (40%), Positives = 692/1118 (61%), Gaps = 25/1118 (2%) Query: 3 ANFEFLLGQPEYKLFANACIEAERVLATSPAMAAVGSRKAFELAVKWVYAADNTITMPYK 62 NF FLL EY+ F+ CIEAE ++ATS A +R+A E AV W+Y+ D+ + PY+ Sbjct: 2 GNFSFLLKNDEYESFSKPCIEAENMIATSTVATAFMARRALEQAVHWIYSHDSYLEAPYR 61 Query: 63 DNLQALIHEPTFKFAMENQTWGKLPYIIKLGNLAVHTDKXXXXXXXXXXXXXXFEFIQWL 122 L +L+ + F+ ++++ ++ +I+ GN A H + ++F+ ++ Sbjct: 62 ATLSSLVWDDDFRDIVDSELHKQIVLLIRWGNHAAHGGEIKEREAILALHHL-YQFVNFI 120 Query: 123 DYCYGVNYEERHFAEDNIPVEKVV----LDEARIKEKDSLIEQKESEIEALRAQIAAMSD 178 DYCY + ER+F E +P+ + ++ IK +DSL E + E + AQ + + Sbjct: 121 DYCYSNEFVERYFDEKCLPLSANIKYRETPQSMIKLQDSLPELPDFH-EQMAAQSVEVQE 179 Query: 179 RLTADKEQ--HQEERHFTPEDISEFRTRKKYIDVDLKLLGWTLGDDAREEVELYGMPNDE 236 T +E +++ F + +SE TRK +ID+DL+L GW ++ R E+ + G+ + Sbjct: 180 TYTEKRETAAQRQDVPFHIDQLSEAETRKLFIDIDLRLAGWIFEENCRVEIAVDGLKHGS 239 Query: 237 GKGYADYVLYGKDGLPLAIIEAKRTSKDPKAGTHQAKLYADCLERMTGRRPMMFTSNGFE 296 G GY DYVLYGK+G LAI+EAK+ S +P+ G Q K YA+ LE+ G +P+ F +NG + Sbjct: 240 GIGYCDYVLYGKNGKILAIVEAKKASVNPEVGEVQVKEYAEALEKHIGYQPICFITNGLK 299 Query: 297 TNLWDDVTSPQRKVSGVFSKSDLQKLMNRRNERKVLDEVV--IDDNITDRYYQKEAIRAV 354 + D +R+++G +S+ +LQ +M+RR+ +K L+++ I D+I+ R+YQK AI +V Sbjct: 300 HYILDGPN--RRQIAGFYSQEELQLVMDRRHLQKPLEDISSKIRDDISGRHYQKHAIASV 357 Query: 355 CDNIMTGHRRSLLVMATGTGKTRTASSLTDVLSRGGYVTNILFLADRKALVKQAKDDFKN 414 C+ R++LLVMATG GKTRTA SL D+LSR +V N+LFLADR +LVKQA D F+ Sbjct: 358 CEAFSNHRRQALLVMATGAGKTRTAVSLVDILSRHNWVKNVLFLADRTSLVKQAYDSFRK 417 Query: 415 YLPDMSLCNLLSNKDD-KTARIVFSTYPTMLNAIDRAKSDDGKRLFTPAHFDLIIVDEAH 473 LPD+S+CN L +K+ +++R+VFSTYPTM+ AI + + +R FT HFDLII+DE+H Sbjct: 418 LLPDLSVCNFLEDKEGAQSSRMVFSTYPTMIGAIS-GQEEVNQRPFTVGHFDLIIIDESH 476 Query: 474 RSIFKKFRAIFEYFDGYVVGLTATPKTDVDRNTYDFFEMESGVPTYAYPYETAVEMDRVL 533 RSI++K+++IF+YFD +VGLTATP+ D+D+NTY FF +E+GVPTYAY E AV+ D L Sbjct: 477 RSIYQKYKSIFDYFDARIVGLTATPRQDLDKNTYGFFNLENGVPTYAYDLEEAVK-DGYL 535 Query: 534 VPYHNIEVTTKVLEQGITYDTLSADDKARYEEDFTEEDGEMPEFIPSPAINDFIFNQATV 593 V YH+IE K+ G+ YD LS ++K ++ F ED + I N F+FN++TV Sbjct: 536 VAYHSIETKLKLPTDGLHYDDLSEEEKEHFDSKF--EDDSCEKDIDGSVFNSFVFNKSTV 593 Query: 594 DQVLEDLMTQGIKVSGGDRLGKTIIFAQNKNHAQYIVERFNKLYPQYKGDFAKRIVSEDD 653 + VL +LMT+GI+ + GD +GKTIIFA+N +HA+YI FN YP+ D+A+ I Sbjct: 594 EIVLNELMTRGIQTASGDEIGKTIIFAKNHDHAEYIRGIFNNRYPEKGSDYAQVIDYSIK 653 Query: 654 YTQSLIDDFKLANKSPYIAVSVDMLDTGIDVPEIVNLVFFKRIRSKTKFWQMIGRGTRLC 713 + Q+LIDDFK+ K P IA+SVDMLDTGIDVPE+VNLVFFK++RSKTKFWQMIGRGTRLC Sbjct: 654 HYQTLIDDFKIEEKYPQIAISVDMLDTGIDVPEVVNLVFFKKVRSKTKFWQMIGRGTRLC 713 Query: 714 KDLFGEGEDKTHFVIFDYLGNFEFFRQHKEGLQGNEAYSLSEVIFAKRIRLIQHLQQAVF 773 KDLFG +DK +F++FDY NF++FR +G SL++ +F ++ LI+ LQ + Sbjct: 714 KDLFGPEQDKENFLVFDYGDNFDYFRADPRDGEGRHIVSLTQRLFNIKVDLIRELQGLQY 773 Query: 774 IDEPY-QSIRTDLIEIVIGQIQALNTELVSVKMQLQYIEKYKHQAAFVCLLEQDQSNLIK 832 ++ + ++ R L+ + G+I++LN V+M L + Y+ ++ L + K Sbjct: 774 QEDQFARAYRQQLVSELQGRIESLNELDFRVRMVLDTVYSYRKLESWQNLTAVTSETIQK 833 Query: 833 YVAPIVYMDDA-DEHAKRFDNLLYGLMLAQAEEAPQYKKSKKQLIDVATTLLQRATIPQV 891 ++P+++ +D DE A+RFD L + L Q A Q++ A L IPQV Sbjct: 834 NLSPLLFDEDKEDEMARRFDLWLLHIQLGQL-TAKSSTVHISQVMKTARALSAIGNIPQV 892 Query: 892 RDKLTLIQTIGTEEFWDSANLLDFEKVRQELRGLIKFIVDEGGKNPIYTNLADEVLE-VH 950 ++ +I+ + EFW NL D EK+R +R L++F+ D+ + P Y NL D +L VH Sbjct: 893 FEQAEIIRKVQEPEFWKEVNLSDLEKIRLAIRDLLQFL-DKTDRKPYYVNLEDRILSTVH 951 Query: 951 EGKAMYEAYTFEDYKLKVNRYIEKNRDNLVIHKLRNNIPLTALDYEALEKIFTGELGTAE 1010 E A + Y KV Y++ + D I KL +N LT+ D ALEK+ +LG+ Sbjct: 952 ETTAFLQVNDLRSYNEKVEHYLKTHLDEESISKLYHNKKLTSDDMLALEKLLWEKLGSKA 1011 Query: 1011 DYEREFKDTPFGLLVRKIAKLEYAAATAAFSEFINDQSLSQGQIVFVKKVIDYIVQNGYI 1070 DY+ +++ LVR+I L+ +A FS+F++D++L+ QI FVK ++DYIV+NG++ Sbjct: 1012 DYQSHYENKAIPRLVREIIGLDRESANRIFSKFLSDENLNARQISFVKLIVDYIVENGFL 1071 Query: 1071 DNVTELTKPPFDKPQSFVKLFDGTKQRRLVETVAQIKE 1108 + LT+ PF S LF Q ++ + QI E Sbjct: 1072 ETKV-LTQEPFKSYGSVQLLF--QHQLPVLRNIVQIIE 1106 >ref|NP_345379.1| type I restriction-modification system, R subunit, putative [Streptococcus pneumoniae TIGR4] pir||B95103 hypothetical protein SP0892 [imported] - Streptococcus pneumoniae (strain TIGR4) gb|AAK75019.1| type I restriction-modification system, R subunit, putative [Streptococcus pneumoniae TIGR4] Length = 1091 Score = 799 bits (2064), Expect = 0.0, Method: Compositional matrix adjust. Identities = 443/1094 (40%), Positives = 676/1094 (61%), Gaps = 25/1094 (2%) Query: 27 VLATSPAMAAVGSRKAFELAVKWVYAADNTITMPYKDNLQALIHEPTFKFAMENQTWGKL 86 ++ATS A +R+A E AV W+Y+ D+ + PY+ L +L+ + F+ ++++ ++ Sbjct: 1 MIATSTVATAFMARRALEQAVHWIYSHDSYLEAPYRATLSSLVWDDDFRDIVDSELHKQI 60 Query: 87 PYIIKLGNLAVHTDKXXXXXXXXXXXXXXFEFIQWLDYCYGVNYEERHFAEDNIPVEKVV 146 +I+ GN A H + ++F+ ++DYCY + ER+F E +P+ + Sbjct: 61 VLLIRWGNHAAHGGEIKEREAILALHHL-YQFVNFIDYCYSNEFVERYFDEKCLPLSANI 119 Query: 147 ----LDEARIKEKDSLIEQKESEIEALRAQIAAMSDRLTADKEQ--HQEERHFTPEDISE 200 ++ IK +DSL E + E + AQ + + T +E +++ F + +SE Sbjct: 120 KYRETPQSMIKLQDSLPELPDFH-EQMAAQSVEVQETYTEKRETAAQRQDVPFHIDQLSE 178 Query: 201 FRTRKKYIDVDLKLLGWTLGDDAREEVELYGMPNDEGKGYADYVLYGKDGLPLAIIEAKR 260 TRK +ID+DL+L GW ++ R E+ + G+ + G GY DYVLYGK+G LAI+EAK+ Sbjct: 179 AETRKLFIDIDLRLAGWIFEENCRVEIAVDGLKHGSGIGYCDYVLYGKNGKILAIVEAKK 238 Query: 261 TSKDPKAGTHQAKLYADCLERMTGRRPMMFTSNGFETNLWDDVTSPQRKVSGVFSKSDLQ 320 S +P+ G Q K YA+ LE+ G +P+ F +NG + + D +R+++G +S+ +LQ Sbjct: 239 ASVNPEVGEVQVKEYAEALEKHIGYQPICFITNGLKHYILDGPN--RRQIAGFYSQEELQ 296 Query: 321 KLMNRRNERKVLDEVV--IDDNITDRYYQKEAIRAVCDNIMTGHRRSLLVMATGTGKTRT 378 +M+RR+ +K L+++ I D+I+ R+YQK AI +VC+ R++LLVMATG GKTRT Sbjct: 297 LVMDRRHLQKPLEDISSKIRDDISGRHYQKHAIASVCEAFSDHRRQALLVMATGAGKTRT 356 Query: 379 ASSLTDVLSRGGYVTNILFLADRKALVKQAKDDFKNYLPDMSLCNLLSNKDD-KTARIVF 437 A SL D+LSR +V N+LFLADR +LVKQA D F+ LPD+S+CN L +K+ +++R+VF Sbjct: 357 AVSLVDILSRHNWVKNVLFLADRTSLVKQAYDSFRKLLPDLSVCNFLEDKEGAQSSRMVF 416 Query: 438 STYPTMLNAIDRAKSDDGKRLFTPAHFDLIIVDEAHRSIFKKFRAIFEYFDGYVVGLTAT 497 STYPTM+ AI + + +R FT HFDLII+DE+HRSI++K+++IF+YFD +VGLTAT Sbjct: 417 STYPTMIGAIS-GQEEVNQRPFTVGHFDLIIIDESHRSIYQKYKSIFDYFDARIVGLTAT 475 Query: 498 PKTDVDRNTYDFFEMESGVPTYAYPYETAVEMDRVLVPYHNIEVTTKVLEQGITYDTLSA 557 P+ D+D+NTY FF +E+GVPTYAY E AV+ D LV YH+IE K+ G+ YD LS Sbjct: 476 PRQDLDKNTYGFFNLENGVPTYAYDLEEAVK-DGYLVAYHSIETKLKLPTDGLHYDDLSE 534 Query: 558 DDKARYEEDFTEEDGEMPEFIPSPAINDFIFNQATVDQVLEDLMTQGIKVSGGDRLGKTI 617 ++K ++ F ED + I N FIFN++TV+ VL +LMT+GI+ + GD +GKTI Sbjct: 535 EEKEHFDSKF--EDNSCEKDIDGSVFNSFIFNKSTVEIVLNELMTRGIQTASGDEIGKTI 592 Query: 618 IFAQNKNHAQYIVERFNKLYPQYKGDFAKRIVSEDDYTQSLIDDFKLANKSPYIAVSVDM 677 IFA+N +HA+YI FN YP+ D+A+ I + Q+LIDDFK+ K P IA+SVDM Sbjct: 593 IFAKNHDHAEYIRGIFNNRYPEKGSDYAQVIDYSIKHYQTLIDDFKIKEKYPQIAISVDM 652 Query: 678 LDTGIDVPEIVNLVFFKRIRSKTKFWQMIGRGTRLCKDLFGEGEDKTHFVIFDYLGNFEF 737 LDTGIDVPE+VNLVFFK++RSKTKFWQMIGRGTRLCKDLFG +DK +F++FDY NF++ Sbjct: 653 LDTGIDVPEVVNLVFFKKVRSKTKFWQMIGRGTRLCKDLFGPEQDKENFLVFDYGDNFDY 712 Query: 738 FRQHKEGLQGNEAYSLSEVIFAKRIRLIQHLQQAVFIDEPY-QSIRTDLIEIVIGQIQAL 796 FR +G SL++ +F ++ LI+ LQ + ++ + ++ R L+ + G+I++L Sbjct: 713 FRADPRDGEGRHIVSLTQRLFNIKVDLIRELQGLQYQEDQFARAYRQQLVSELQGRIESL 772 Query: 797 NTELVSVKMQLQYIEKYKHQAAFVCLLEQDQSNLIKYVAPIVYMDDA-DEHAKRFDNLLY 855 N V+M L + Y+ ++ L + K ++P+++ +D DE A+RFD L Sbjct: 773 NELDFRVRMVLDTVYSYRKLESWQNLTAVTSETIQKNLSPLLFDEDKEDEMARRFDLWLL 832 Query: 856 GLMLAQAEEAPQYKKSKKQLIDVATTLLQRATIPQVRDKLTLIQTIGTEEFWDSANLLDF 915 + L Q A Q++ A L IPQV ++ +I+ + EFW NL D Sbjct: 833 HIQLGQL-TAKSSTVHISQVMKTARALSAIGNIPQVFEQAEIIRKVQEPEFWKEVNLSDL 891 Query: 916 EKVRQELRGLIKFIVDEGGKNPIYTNLADEVLE-VHEGKAMYEAYTFEDYKLKVNRYIEK 974 EK+R +R L++F+ D+ + P Y N D +L VHE A + Y KV Y++ Sbjct: 892 EKIRLAIRDLLQFL-DKTDRKPYYVNFEDRILSTVHETTAFLQVNDLRSYNEKVEHYLKT 950 Query: 975 NRDNLVIHKLRNNIPLTALDYEALEKIFTGELGTAEDYEREFKDTPFGLLVRKIAKLEYA 1034 + D I KL +N LT+ D ALEK+ +LG+ DY+ +++ LVR+I L+ Sbjct: 951 HLDEESISKLYHNKKLTSDDMLALEKLLWEKLGSKADYQSHYENKAIPRLVREIIGLDRE 1010 Query: 1035 AATAAFSEFINDQSLSQGQIVFVKKVIDYIVQNGYIDNVTELTKPPFDKPQSFVKLFDGT 1094 +A FS+F++D++L+ QI FVK ++DYIV+NG+++ LT+ PF S LF Sbjct: 1011 SANRIFSKFLSDENLNARQISFVKLIVDYIVENGFLETKV-LTQEPFKSYGSVQLLF--Q 1067 Query: 1095 KQRRLVETVAQIKE 1108 Q ++ + QI E Sbjct: 1068 HQLPVLRNIVQIIE 1081 >ref|NP_870065.1| type I restriction enzyme, R protein [Pirellula sp. 1] emb|CAD79220.1| type I restriction enzyme, R protein [Pirellula sp.] Length = 1137 Score = 773 bits (1996), Expect = 0.0, Method: Compositional matrix adjust. Identities = 458/1152 (39%), Positives = 673/1152 (58%), Gaps = 61/1152 (5%) Query: 3 ANFEFLLGQPEYKLFANACIEAERVLATSPAMAAVGSRKAFELAVKWVYAADNTITMPYK 62 +NF+FL E+K A +AE P + +R+ ELA +W Y D + +PY+ Sbjct: 2 SNFDFLTS--EWKDIHEAASKAESAAIPDPRTSCFYARRTLELAARWAYKFDRALKLPYQ 59 Query: 63 DNLQALIHEPTFKFAMENQTWGKLPYIIKLGNLAVHTDKXXXXXXXXXXXXXXFEFIQWL 122 DNL ALIHEPTFK + + K I K GN AVH+ + F F W Sbjct: 60 DNLSALIHEPTFKQTAGDAVFNKAKLINKRGNDAVHSHRDVSEADAVSTVQELFHFCYWF 119 Query: 123 DYCYG--------VNYEERHFAEDNIP---VEKVVLDEARIKEKDSLI-------EQKES 164 Y + ++ IP + ++ L E ++KEKD + ++ ++ Sbjct: 120 ARLYARRNRPDPALTFDPAILPTTAIPKQTLNQLKLLETQLKEKDEKLSVLLADKDKLDA 179 Query: 165 EIEALRAQIAAMSDRLTADKEQHQEERHFTPEDISEFRTRKKYIDVDLKLLGWTLGDDAR 224 EI+ LR ++A ++ H D +E TR ++ID LK GW L Sbjct: 180 EIKLLRTEVAKAKKAAEKIQDDH---------DYNEAETRDRWIDELLKESGWPLDQKRD 230 Query: 225 EEVELYGMPNDEGKGYADYVLYGKDGLPLAIIEAKRTSKDPKAGTHQAKLYADCLERMTG 284 E + GMPN +G+G+ DYVL+G DG PLA++EAKRT +DP+AG QAKLYADCLE + G Sbjct: 231 LEFPVTGMPNTKGEGFVDYVLWGDDGKPLAVVEAKRTRRDPRAGEQQAKLYADCLEAIYG 290 Query: 285 RRPMMFTSNGFETNLWDDVTSPQRKVSGVFSKSDLQKLMNRRNERKVLDEVVIDDNITDR 344 +RP++F +NG+E +WDD R+V G + K++L+ L+ RR+ R+ L IDD I +R Sbjct: 291 QRPIIFYTNGYEHWIWDDAMYAPRRVQGFYKKAELELLILRRSSRRDLASATIDDTIVER 350 Query: 345 YYQKEAIRAVCDNI-MTGHRRSLLVMATGTGKTRTASSLTDVLSRGGYVTNILFLADRKA 403 YYQ AIR + ++ R+SLLVMATG+GKTRT +L D+L R + +LFLADR A Sbjct: 351 YYQTRAIRRIGESFEKDNERKSLLVMATGSGKTRTVIALCDLLIRCNWAKRVLFLADRVA 410 Query: 404 LVKQAKDDFKNYLPDMSLCNLLSNKDDKTARIVFSTYPTMLNAIDRAKSDDGKRLFTPAH 463 LV QA + FK +LPD S NL++ KD + R+ STYPTM+ ID AK DG+R F H Sbjct: 411 LVNQATNAFKAFLPDSSPVNLVTEKDSE-GRVYLSTYPTMMGLIDEAK--DGQRRFGVGH 467 Query: 464 FDLIIVDEAHRSIFKKFRAIFEYFDGYVVGLTATPKTDVDRNTYDFFEMESGVPTYAYPY 523 FDL+++DEAHRS+++K+ AIF+YFD +VGLTATPK ++D+NTY F++E+GVPT AY Sbjct: 468 FDLVVIDEAHRSVYQKYGAIFDYFDSLLVGLTATPKDEIDKNTYGLFDLETGVPTDAYDL 527 Query: 524 ETAVEMDRVLVPYHNIEVTTKVLEQGITYDTLSADDKARYEEDFTEEDGEMPEFIPSPAI 583 + AV D+ LVP + V K +GI YD LS +DK ++ +ED + S A+ Sbjct: 528 DEAV-ADKFLVPPKAVSVPLKFEREGIKYDDLSEEDKDEWDAKEWDEDVVRKGEVDSSAV 586 Query: 584 NDFIFNQATVDQVLEDLMTQGIKVSGGDRLGKTIIFAQNKNHAQYIVERFNKLYPQYKGD 643 N ++FN+ TVD+VLE LMT+G V+GGD LGKTIIFA+N+ HA +I ERF+ YP YKG+ Sbjct: 587 NKWLFNEDTVDKVLEHLMTRGQYVAGGDLLGKTIIFAKNQGHADFIKERFDINYPHYKGE 646 Query: 644 FAKRIVSEDDYTQSLIDDFKLANKSPYIAVSVDMLDTGIDVPEIVNLVFFKRIRSKTKFW 703 FA+ I + +Y Q++ID F +K P IA+SVDMLDTGIDVPE++NLVFFK +RSKTKFW Sbjct: 647 FARIITFKTEYAQTVIDSFSNKDKLPQIAISVDMLDTGIDVPEVLNLVFFKLVRSKTKFW 706 Query: 704 QMIGRGTRLCKDLFGEGEDKTHFVIFDYLGNFEFFRQHKEGLQGNEAYSLSEVIFAKRIR 763 QM+GRGTRLC DLFG G+DK F IFDY N E+F Q+ G G+ A SLS +F +R+ Sbjct: 707 QMVGRGTRLCPDLFGPGQDKEFFYIFDYCQNLEYFSQNPAGSAGSTAESLSTRLFKRRLE 766 Query: 764 LIQHLQ--------QAVF-IDEPYQS-------IRTDLIEIVIGQIQALNTELVSVKMQL 807 LI+ L +A+ D Y++ +R + Q+ ++N E V+ Sbjct: 767 LIRFLDGKELPATAEAISEADAGYEADPTSETQVRALAARFLHRQVASMNLENFLVRAHR 826 Query: 808 QYIEKYKHQAAFVCLLEQDQSNLIKYVAPI-VYMDDADEHAKRFDNLLYGLMLAQAEEAP 866 + +EK+ + A+ L E + L VAP+ M+ E AKRFD LL L L+ + P Sbjct: 827 RSVEKFAKKEAWEQLKEAEIQELADEVAPLPTQMERESEEAKRFDLLLLNLQLSLLNKEP 886 Query: 867 QYKKSKKQLIDVATTLLQRATIPQVRDKLTLIQTIGTEEFWDSANLLDFEKVRQELRGLI 926 Y++ ++Q++ +A L ++ TIP V ++ I+ I TEE+W L E +R+ LR L+ Sbjct: 887 AYERLRQQVVAIAGLLEEKHTIPMVNQQMIHIEAIQTEEWWADVTLPMLEVIRRRLRDLV 946 Query: 927 KFIVDEGGKNPIYTNLADEVL--EVHEGKAMYEAY-TFEDYKLKVNRYIEKNRDNLVIHK 983 +FI ++ + P+YTN D++L EV G + TFE ++ K ++ ++ + K Sbjct: 947 QFI-EKAKRKPVYTNF-DDMLGDEVEVGLDEFVGTDTFERFRSKAQAFLREHLGIDAVRK 1004 Query: 984 LRNNIPLTALDYEALEKIFT-GELGTAEDYEREFKDTP-FGLLVRKIAKLEYAAATAAFS 1041 LR N LT D + LE+I E+G E E+ +++ FG+ VR + ++ A F Sbjct: 1005 LRTNETLTKADLDDLERILLDNEIGNHEYIEQAKQESEGFGVFVRSLVGIDREVAKRLFG 1064 Query: 1042 EFINDQSLSQGQIVFVKKVIDYIVQNGYIDNVTELTKPPFD--KPQSFVKLFDGTKQRRL 1099 EF+ + QI F+ +++ +V +G +D + L + PF PQ +F + ++ Sbjct: 1065 EFLQGSVYNANQIEFINLIVNQLVDHGIVD-ASLLYESPFTDISPQGPDAIFTSEEVDKI 1123 Query: 1100 VETVAQIKENAV 1111 ++ + IK +A+ Sbjct: 1124 MQLLDDIKASAI 1135 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.319 0.137 0.391 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 1,606,335,144 Number of extensions: 69192867 Number of successful extensions: 238292 Number of sequences better than 1.0e-05: 173 Number of HSP's gapped: 237922 Number of HSP's successfully gapped: 177 Length of query: 1115 Length of database: 757,237,578 Length adjustment: 136 Effective length of query: 979 Effective length of database: 387,984,114 Effective search space: 379836447606 Effective search space used: 379836447606 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 132 (55.5 bits)