RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254781120|ref|YP_003065533.1| radical SAM protein [Candidatus Liberibacter asiaticus str. psy62] (384 letters) >gnl|CDD|183031 PRK11194, PRK11194, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 372 Score = 351 bits (902), Expect = 2e-97 Identities = 160/363 (44%), Positives = 214/363 (58%), Gaps = 22/363 (6%) Query: 5 KKESLIGMMREELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLL 64 KK +L+ + R+++ E ++G R Q+ KWIY G DF M++I++ +R L Sbjct: 4 KKINLLDLNRQQMREFFAELG----EKPFRADQVMKWIYHYGCDDFDEMTNINKVLREKL 59 Query: 65 NQHFSIIYPEIVDEKISCDGTRKWLLRFPARCIGGPVEIETVYIPEKSRGTLCVSSQVGC 124 + I PE+ +E+ S DGT KW + G +ETVYIPE R TLCVSSQVGC Sbjct: 60 KEVAEIRAPEVAEEQRSSDGTIKWAIAV------GDQRVETVYIPEDDRATLCVSSQVGC 113 Query: 125 SLTCSFCYTGTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVM 184 +L C FC T Q RNL EI+ QV A ++G + G R I+N+VM Sbjct: 114 ALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIIGAA----KVTGQ------RPITNVVM 163 Query: 185 MGMGEPLCNFDNVKKSLSIASDSMGLSFSKRRITLSTSGFVPNIARVGEEIGVMLAISLH 244 MGMGEPL N +NV ++ I D G SKRR+TLSTSG VP + ++G+ I V LAISLH Sbjct: 164 MGMGEPLLNLNNVVPAMEIMLDDFGFGLSKRRVTLSTSGVVPALDKLGDMIDVALAISLH 223 Query: 245 AVSNDLRNILVPINRKYPLEMLIDACRHYPGLSNAR--RITFEYVMLKGINDSPRDALNL 302 A +++LR+ +VPIN+KY +E + A R Y SNA R+T EYVML +ND A L Sbjct: 224 APNDELRDEIVPINKKYNIETFLAAVRRYLEKSNANQGRVTVEYVMLDHVNDGTEHAHQL 283 Query: 303 IKILKGIPAKINLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSSPIRTPRGLDILAAC 362 ++LK P KINLIP+NP+PG Y S I FS+ + G++ +R RG DI AAC Sbjct: 284 AELLKDTPCKINLIPWNPFPGAPYGRSSNSRIDRFSKVLMEYGFTVIVRKTRGDDIDAAC 343 Query: 363 GQL 365 GQL Sbjct: 344 GQL 346 >gnl|CDD|161680 TIGR00048, TIGR00048, radical SAM enzyme, Cfr family. A Staphylococcus sciuri plasmid-borne member of this family, Cfr, has been identified as essential to transferrable resistance to chloramphenicol and florfenicol by an unknown mechanism. A 14-15 residue cluster with four perfectly conserved Cys residues suggests this protein may be an enzyme with an iron-sulfur cluster. The Cys cluster is part of the radical SAM domain, suggested to provide a general mechanism by which the Fe-S center cleaves S-adenosylmethionine to initiate radical-based catalysis. Members of this family lack apparent transmembrane domains. Length = 355 Score = 349 bits (897), Expect = 7e-97 Identities = 160/374 (42%), Positives = 223/374 (59%), Gaps = 27/374 (7%) Query: 6 KESLIGMMREELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLLN 65 K SL + +EL + L +G R QI+KW+Y +G F M+++S+++R LN Sbjct: 6 KPSLYDLTLQELRQWLKDLGEKP----FRAKQIYKWLYHKGKDSFDDMTNLSKDLREKLN 61 Query: 66 QHFSIIYPEIVDEKISCDGTRKWLLRFPARCIGGPVEIETVYIPEKSRGTLCVSSQVGCS 125 + F I PEI E+ S DGT K+L + +G IETV IPEK R T+CVSSQVGC+ Sbjct: 62 RVFEIRTPEIAHEQRSVDGTIKYLFK-----LGDGQTIETVLIPEKDRATVCVSSQVGCA 116 Query: 126 LTCSFCYTGTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVMM 185 L C+FC T RNL A EI+ QVL + + + G ++SN+V M Sbjct: 117 LGCTFCATAKGGFNRNLEASEIIGQVLRVQKINNET--------------GERVSNVVFM 162 Query: 186 GMGEPLCNFDNVKKSLSIASDSMGLSFSKRRITLSTSGFVPNIARVGEE-IGVMLAISLH 244 GMGEPL N + V K++ I +D GL SKRRIT+STSG VP I + ++ + V LAISLH Sbjct: 163 GMGEPLLNLNEVVKAMEIMNDDFGLGISKRRITISTSGVVPKIDILADKMLQVALAISLH 222 Query: 245 AVSNDLRNILVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSPRDALNLIK 304 A +++LR+ L+PIN+KY +E L+ A R Y + RR+TFEYV+L G+ND A L + Sbjct: 223 APNDELRSSLMPINKKYNIETLLAAVRRYLNKTG-RRVTFEYVLLDGVNDQVEHAEELAE 281 Query: 305 ILKGIPAKINLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSSPIRTPRGLDILAACGQ 364 +LKG K+NLIP+NP+P +Y + I F++ + G++ IR RG DI AACGQ Sbjct: 282 LLKGTKCKVNLIPWNPFPEADYERPSNEQIDRFAKTLMSYGFTVTIRKSRGDDIDAACGQ 341 Query: 365 L--KSLSKRIPKVP 376 L K + R + P Sbjct: 342 LRAKDVIDRTKRTP 355 >gnl|CDD|172938 PRK14463, PRK14463, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 349 Score = 335 bits (860), Expect = 2e-92 Identities = 152/354 (42%), Positives = 216/354 (61%), Gaps = 33/354 (9%) Query: 15 EELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLLNQ--HFSIIY 72 +ELE L G R R QI+KW+Y R R F M+++S+++R L + S + Sbjct: 13 QELEAFLAGQG----KERFRAKQIFKWLYQRDARSFAEMTNLSKDLRAELEETARISNLE 68 Query: 73 PEIVDEKISCDGTRKWLLRFPARCIGGPVEIETVYIPEKSRGTLCVSSQVGCSLTCSFCY 132 PE V+ +S DGTRK+L R +E+V IP++ R TLC+SSQVGC++ C+FC Sbjct: 69 PEAVE--VSRDGTRKYLFRLEDGN-----AVESVLIPDEDRNTLCISSQVGCAMGCAFCL 121 Query: 133 TGTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVMMGMGEPLC 192 TGT +L RNLT EI+ QV + D P + NIV MGMGEPL Sbjct: 122 TGTFRLTRNLTTAEIVNQVCAVKR---DVP----------------VRNIVFMGMGEPLA 162 Query: 193 NFDNVKKSLSIASDSMGLSFSKRRITLSTSGFVPNIARVGEEIGVMLAISLHAVSNDLRN 252 N DNV +L I +D GL FS R++T+STSG VP + +G E+ V LA+SL+A ++++R+ Sbjct: 163 NLDNVIPALQILTDPDGLQFSTRKVTVSTSGLVPEMEELGREVTVNLAVSLNATTDEVRD 222 Query: 253 ILVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSPRDALNLIKILKGIPAK 312 ++P+NR+YPL L+ AC+ +P L R+IT EYVM++G+NDS DA L+++L IP+K Sbjct: 223 RIMPVNRRYPLAELLAACKAFP-LPGRRKITIEYVMIRGLNDSLEDAKRLVRLLSDIPSK 281 Query: 313 INLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSSPIRTPRGLDILAACGQLK 366 +NLIPFN GC++ Q+ I F + + + R+ RG DI AACGQLK Sbjct: 282 VNLIPFNEHEGCDFRSPTQEAIDRFHKYLLDKHVTVITRSSRGSDISAACGQLK 335 >gnl|CDD|172935 PRK14460, PRK14460, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 354 Score = 317 bits (814), Expect = 3e-87 Identities = 145/354 (40%), Positives = 205/354 (57%), Gaps = 21/354 (5%) Query: 15 EELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLLNQHFSIIYPE 74 ELE + R R QIW+W++ +G RDF M+++S+ +R L + I +PE Sbjct: 10 PELEAFITA---ELGEPRFRARQIWQWLWQKGARDFDSMTNVSKALRARLAEKAVINWPE 66 Query: 75 IVDEKISCDGTRKWLLRFPARCIGGPVEIETVYIPEKS-RGTLCVSSQVGCSLTCSFCYT 133 + + S DGT K+LLR G + +ETV IP KS R T C+S QVGC++ C+FC T Sbjct: 67 VETVQTSSDGTVKFLLRLA----DGAL-VETVLIPSKSRRYTQCLSCQVGCAMGCTFCST 121 Query: 134 GTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVMMGMGEPLCN 193 GT RN+T EIL QVL+AR LGD G + + N+V MGMGEPL N Sbjct: 122 GTMGFERNMTMGEILGQVLVAREHLGD-NGPDH----------PILRNLVFMGMGEPLLN 170 Query: 194 FDNVKKSLSIASDSMGLSFSKRRITLSTSGFVPNIARVGEEIGVMLAISLHAVSNDLRNI 253 D V +SL ++ GL+FS RRIT+ST G + +GE LA+SLHA + +LR Sbjct: 171 LDEVMRSLRTLNNEKGLNFSPRRITVSTCGIEKGLRELGESGLAFLAVSLHAPNQELRER 230 Query: 254 LVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSPRDALNLIKILKGIPAKI 313 ++P ++PL+ LI A + YP L R+TFEY++L G+NDS A L+++L K+ Sbjct: 231 IMPKAARWPLDDLIAALKSYP-LKTRERVTFEYLLLGGVNDSLEHARELVRLLSRTKCKL 289 Query: 314 NLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSSPIRTPRGLDILAACGQLKS 367 NLI +NP G Y ++ I+ F + + G ++ IR +G DI AACGQLK+ Sbjct: 290 NLIVYNPAEGLPYSAPTEERILAFEKYLWSKGITAIIRKSKGQDIKAACGQLKA 343 >gnl|CDD|184686 PRK14454, PRK14454, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 342 Score = 310 bits (797), Expect = 3e-85 Identities = 146/363 (40%), Positives = 216/363 (59%), Gaps = 29/363 (7%) Query: 6 KESLIGMMREELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLLN 65 ++++ EEL+E + + G + R QI+ WIY +G+ DF M++I + +R L Sbjct: 1 MKNILDFTLEELKEWMKENG----EKKFRAKQIFDWIYKKGVTDFDEMTNIPKNLREKLK 56 Query: 66 QHFSIIYPEIVDEKIS-CDGTRKWLLRFPARCIGGPVEIETVYIPEKSRGTLCVSSQVGC 124 ++F I P+IV + +S DGT K+L I IE+V + K ++CVS+QVGC Sbjct: 57 ENFYIGIPKIVKKLVSKIDGTVKFLFELEDGNI-----IESVVMKYKHGNSICVSTQVGC 111 Query: 125 SLTCSFCYTGTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVM 184 + C FC + +VRNLTA E+L Q+L A++ +G+ +ISNIV+ Sbjct: 112 RMGCKFCASTIGGMVRNLTAGEMLDQILAAQNDIGE-----------------RISNIVL 154 Query: 185 MGMGEPLCNFDNVKKSLSIASDSMGLSFSKRRITLSTSGFVPNIARVGEE-IGVMLAISL 243 MG GEPL N++NV K L I + GL+ +R ITLST G VP I + +E + + LAISL Sbjct: 155 MGSGEPLDNYENVMKFLKIVNSPYGLNIGQRHITLSTCGIVPKIYELADENLQITLAISL 214 Query: 244 HAVSNDLRNILVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSPRDALNLI 303 HA +++LR ++PI KY +E LI+AC++Y +N RRITFEY ++KG+NDS DA L Sbjct: 215 HAPNDELRKKMMPIANKYSIEELIEACKYYINKTN-RRITFEYALVKGVNDSKEDAKELG 273 Query: 304 KILKGIPAKINLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSSPIRTPRGLDILAACG 363 K+LKG+ +NLIP N + S ++ I F +K++G + IR G DI AACG Sbjct: 274 KLLKGMLCHVNLIPVNEVKENGFKKSSKEKIKKFKNILKKNGIETTIRREMGSDINAACG 333 Query: 364 QLK 366 QL+ Sbjct: 334 QLR 336 >gnl|CDD|184690 PRK14462, PRK14462, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 356 Score = 305 bits (784), Expect = 9e-84 Identities = 142/376 (37%), Positives = 212/376 (56%), Gaps = 42/376 (11%) Query: 5 KKESLIGMMREELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLL 64 K+++ EEL E L R QI++W+Y + F M ++ +++R L Sbjct: 1 MKKNIYDFTLEELSELL--------KPSFRAKQIYQWLYAKYATSFDDMKNLPKDLREYL 52 Query: 65 NQHFSIIYPEIVDEKISCDGTRKWLLRFPARCIGGPVEIETVYIPEK------------- 111 Q F++ +IV + S DG++K+L + + +E V + K Sbjct: 53 AQEFTLDPLKIVKVEQSKDGSKKYLFK-----LRDGHTVEAVLLKMKDEKIDEEGKILEH 107 Query: 112 SRGTLCVSSQVGCSLTCSFCYTGTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMV 171 ++ T+CVSSQVGC + C+FC T VRNL+A EI+ Q+L + + P E V Sbjct: 108 AKYTVCVSSQVGCKVGCAFCLTAKGGFVRNLSAGEIVGQILWIKKD-NNIP----YEKRV 162 Query: 172 IPSVGRKISNIVMMGMGEPLCNFDNVKKSLSIASDSMGLSFSKRRITLSTSGFVPNIARV 231 NIV MGMGEPL N DNV K++ I S++ GL+ S RR T+STSG I ++ Sbjct: 163 ---------NIVYMGMGEPLDNLDNVSKAIKIFSENDGLAISPRRQTISTSGLASKIKKL 213 Query: 232 GEE-IGVMLAISLHAVSNDLRNILVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLK 290 GE +GV LAISLHAV ++LR+ L+PIN+ Y +E +IDA R +P + +R+ FEY+++K Sbjct: 214 GEMNLGVQLAISLHAVDDELRSELMPINKAYNIESIIDAVRKFP-IDQRKRVMFEYLVIK 272 Query: 291 GINDSPRDALNLIKILKGIPAKINLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSSPI 350 +ND + A L+K+L GI AK+NLI FNP G ++ +D++ F + + G I Sbjct: 273 DVNDDLKSAKKLVKLLNGIKAKVNLILFNPHEGSKFERPSLEDMIKFQDYLNSKGLLCTI 332 Query: 351 RTPRGLDILAACGQLK 366 R +GLDI AACGQL+ Sbjct: 333 RESKGLDISAACGQLR 348 >gnl|CDD|184693 PRK14467, PRK14467, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 348 Score = 291 bits (747), Expect = 2e-79 Identities = 142/367 (38%), Positives = 211/367 (57%), Gaps = 32/367 (8%) Query: 6 KESLIGMMREELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLLN 65 E++ EELEE ++++G + R QI KW+Y + + DF M+D+S+E R LL Sbjct: 1 MENIKNYNLEELEEFVVELGWE----KYRAKQIAKWVYKKKVTDFDEMTDLSKEDRQLLK 56 Query: 66 QHFSIIYPEIVDEKISCDGTRKWLLRFPARCIGGPVEIETVYIPEKSRGTLCVSSQVGCS 125 ++F E++D ++ D + K+L + IETV I E+ TLCVSSQVGC+ Sbjct: 57 ENFEFHTLELLD-RVEADDSVKYLFKTKDGHT-----IETVLIKERDHLTLCVSSQVGCA 110 Query: 126 LTCSFCYTGTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVMM 185 + C FC T L+RNL EI+ Q + + LG+ +I N+V M Sbjct: 111 VGCKFCATAKDGLIRNLRTAEIIDQYIQVQKFLGE----------------NRIRNVVFM 154 Query: 186 GMGEPLCNFDNVKKSLSIASDSMGLSFSKRRITLSTSGFVPNIARVGEEI---GVMLAIS 242 GMGEPL N++NV+K++ I + GL SKRRIT+STSG + I R+ E+ V LA+S Sbjct: 155 GMGEPLANYENVRKAVQIMTSPWGLDLSKRRITISTSGIIHQIKRMAEDPVMPEVNLAVS 214 Query: 243 LHAVSNDLRNILVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSPRDALNL 302 L+A S LR ++PI++ LE L++ + YP L RRI EYV++KG+NDSP DAL L Sbjct: 215 LNASSQKLRERIMPISKTNTLEELMEVLKQYP-LPPGRRIMLEYVLIKGVNDSPEDALRL 273 Query: 303 IKILKGIPA--KINLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSSPIRTPRGLDILA 360 +++ K+NLIPFNP P Y + + + F + + +G S+ +R +G+DI Sbjct: 274 AQLIGKNKKKFKVNLIPFNPDPELPYERPELERVYKFQKILWDNGISTFVRWSKGVDIFG 333 Query: 361 ACGQLKS 367 ACGQL+ Sbjct: 334 ACGQLRK 340 >gnl|CDD|184687 PRK14455, PRK14455, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 356 Score = 291 bits (746), Expect = 3e-79 Identities = 140/363 (38%), Positives = 217/363 (59%), Gaps = 25/363 (6%) Query: 6 KESLIGMMREELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLLN 65 K S+ + +EL+E L++ G + R +QIW W+Y + ++ F+ M+++S+++R LN Sbjct: 10 KPSIYSLTLDELQEWLVEQG----EKKFRATQIWDWLYRKRVQSFEEMTNLSKDLREKLN 65 Query: 66 QHFSIIYPEIVDEKISCDGTRKWLLRFPARCIGGPVEIETVYIPEKSRGTLCVSSQVGCS 125 +F + + ++ S DGT K+L P IETV + + ++CV++QVGC Sbjct: 66 DNFVVTTLKTRVKQESKDGTIKFLFELP-----DGYLIETVLMRHEYGNSVCVTTQVGCR 120 Query: 126 LTCSFCYTGTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVMM 185 + C+FC + L R+L A EI+ QV+L + L + ++S+IV+M Sbjct: 121 IGCTFCASTLGGLKRDLEAGEIVAQVMLVQKYLDE--------------TEERVSHIVVM 166 Query: 186 GMGEPLCNFDNVKKSLSIASDSMGLSFSKRRITLSTSGFVPNIARVGEE-IGVMLAISLH 244 G+GEP N+DNV L I +D GL+ R IT+STSG P I +E + + LAISLH Sbjct: 167 GIGEPFDNYDNVMDFLRIINDDKGLAIGARHITVSTSGIAPKIYDFADEGLQINLAISLH 226 Query: 245 AVSNDLRNILVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSPRDALNLIK 304 A +N+LR+ L+PINR YPLE L++A +Y +N RR+TFEY++L G+ND A L Sbjct: 227 APNNELRSSLMPINRAYPLEKLMEAIEYYIEKTN-RRVTFEYILLGGVNDQVEHAEELAD 285 Query: 305 ILKGIPAKINLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSSPIRTPRGLDILAACGQ 364 +LKGI +NLIP NP P +Y+ + ++DI F + +K++G + IR G DI AACGQ Sbjct: 286 LLKGIKCHVNLIPVNPVPERDYVRTPKEDIFAFEDTLKKNGVNCTIRREHGTDIDAACGQ 345 Query: 365 LKS 367 L++ Sbjct: 346 LRA 348 >gnl|CDD|172944 PRK14469, PRK14469, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 343 Score = 283 bits (726), Expect = 5e-77 Identities = 135/363 (37%), Positives = 208/363 (57%), Gaps = 30/363 (8%) Query: 6 KESLIGMMREELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLLN 65 ++++ + EEL + ++G+ + R QI WIY + + +F M+++S++ R LL+ Sbjct: 1 MKNILDLSYEELVSEITELGLE----KYRADQILDWIYKKKVFNFDEMTNLSKDHRALLS 56 Query: 66 QHFSIIYPEIVDEKIS-CDGTRKWLLRFPARCIGGPVEIETVYIPEKSRGTLCVSSQVGC 124 +HFSI +P+++D+++S DGT K+L IE+V + R T C+S+QVGC Sbjct: 57 EHFSIPFPKLLDKQVSKIDGTTKFLWELEDGNT-----IESVMLFHPDRITACISTQVGC 111 Query: 125 SLTCSFCYTGTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVM 184 + C FC TG VRNLT EI+ Q+L E E K+ N+V Sbjct: 112 PVKCIFCATGQSGFVRNLTTGEIVSQIL----------AMEKEEKK-------KVGNVVY 154 Query: 185 MGMGEPLCNFDNVKKSLSIASDSMGLSFSKRRITLSTSGFVPNIARVGEE-IGVMLAISL 243 MGMGEPL N++NV KS+ I + + RRIT+ST G I ++ EE + V LA+SL Sbjct: 155 MGMGEPLLNYENVIKSIKILNHKKMKNIGIRRITISTVGIPEKIIQLAEEGLDVKLALSL 214 Query: 244 HAVSNDLRNILVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSPRDALNLI 303 HA +N R+ +VP+N+KY +E +I+A + Y + R+T EY+++KG ND DA L Sbjct: 215 HAPTNFKRDQIVPLNKKYSIEEIINAVKIYQKKTG-NRVTIEYILIKGFNDEIEDAKKLA 273 Query: 304 KILKGIPAKINLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSSPIRTPRGLDILAACG 363 ++LKG+ +NLIP NP S ++ I F E + ++G + IR +G DI AACG Sbjct: 274 ELLKGLKVFVNLIPVNPTVPGLEKPSRER-IERFKEILLKNGIEAEIRREKGSDIEAACG 332 Query: 364 QLK 366 QL+ Sbjct: 333 QLR 335 >gnl|CDD|184692 PRK14466, PRK14466, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 345 Score = 272 bits (696), Expect = 1e-73 Identities = 138/367 (37%), Positives = 197/367 (53%), Gaps = 30/367 (8%) Query: 6 KESLIGMMREELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLLN 65 K L+GM EEL+ ++G+P QI W+Y + + M++IS R L Sbjct: 4 KYPLLGMTLEELQSVAKRLGMP----AFAAKQIASWLYDKKVTSIDEMTNISLAHREKLA 59 Query: 66 QHFSIIYPEIVDEKISCDGTRKWLLRFPARCIGGPVEIETVYIPEKSRGTLCVSSQVGCS 125 + + I VDE+ S DGT K+L +E+VYIPE+ R TLCVSSQVGC Sbjct: 60 EEYEIGAYAPVDEQRSVDGTIKYLFPVGEGHF-----VESVYIPEEDRATLCVSSQVGCK 114 Query: 126 LTCSFCYTGTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVMM 185 + C FC TG Q NLTA +IL Q+ +P K++N+V M Sbjct: 115 MNCLFCMTGKQGFTGNLTAAQILNQI------------------YSLPE-RDKLTNLVFM 155 Query: 186 GMGEPLCNFDNVKKSLSIASDSMGLSFSKRRITLSTSGFVPNIARVGEEIGVMLAISLHA 245 GMGEPL N D V K+L I + G +S +RIT+ST G + R EE LAISLH+ Sbjct: 156 GMGEPLDNLDEVLKALEILTAPYGYGWSPKRITVSTVGLKKGLKRFLEESECHLAISLHS 215 Query: 246 VSNDLRNILVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSPRDALNLIKI 305 + R L+P + + ++ +ID ++Y S RR++FEY++ KG+NDS + A L+K+ Sbjct: 216 PFPEQRRELMPAEKAFSIKEIIDLLKNY-DFSKQRRVSFEYIVFKGLNDSLKHAKELVKL 274 Query: 306 LKGIPAKINLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSSPIRTPRGLDILAACGQL 365 L+GI ++NLI F+ PG + SD + F + + G + IR RG DI AACG L Sbjct: 275 LRGIDCRVNLIRFHAIPGVDLEGSDMARMEAFRDYLTSHGVFTTIRASRGEDIFAACGML 334 Query: 366 KSLSKRI 372 S +K+ Sbjct: 335 -STAKQE 340 >gnl|CDD|184694 PRK14468, PRK14468, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 343 Score = 261 bits (668), Expect = 2e-70 Identities = 129/333 (38%), Positives = 186/333 (55%), Gaps = 21/333 (6%) Query: 34 RTSQIWKWIYVRGIRDFQGMSDISQEVRHLLNQHFSIIYPEIVDEKISCDGTRKWLLRFP 93 R +Q+ +W+Y +G R F M+++ + +R L + + + V+ S DG+ K+L Sbjct: 18 RRAQLAEWLYAQGARTFDAMTNLPKALRAELAREYRLSPFREVETFRSQDGSVKYLFTLL 77 Query: 94 ARCIGGPVEIETVYIPEKSRGTLCVSSQVGCSLTCSFCYTGTQKLVRNLTAEEILLQVLL 153 + E VY+P R T+CVS+ VGC C+FC TG RNLTA EIL QVL Sbjct: 78 -----DGKQTEAVYMPYLDRKTICVSTMVGCPAGCAFCATGAMGFGRNLTAAEILDQVLA 132 Query: 154 ARSLLGDFPGCEDIEGMVIPSVGRKISNIVMMGMGEPLCNFDNVKKSLSIASDSMGLSFS 213 G P R+I N+V+MGMGEPL N++NV K+ I L+ S Sbjct: 133 VAGHEGISP--------------REIRNVVLMGMGEPLLNYENVLKAARIMLHPQALAMS 178 Query: 214 KRRITLSTSGFVPNIARVGEE-IGVMLAISLHAVSNDLRNILVPINRKYPLEMLIDACRH 272 RR+TLST G I R+ EE +GV LA+SLHA + R ++P +Y + ++ A RH Sbjct: 179 PRRVTLSTVGIPKGIRRLAEEDLGVRLALSLHAPDEETRQRIIPTAHRYSIAEIMAAVRH 238 Query: 273 YPGLSNARRITFEYVMLKGINDSPRDALNLIKILKGIPAKINLIPFNPWPGCEYLCSDQK 332 Y ++ RR+T EY MLKG+ND A L +L+G+ + +NLIPFNPW G + S + Sbjct: 239 YQAVT-GRRVTLEYTMLKGVNDHLWQAELLADLLRGLVSHVNLIPFNPWEGSPFQSSPRA 297 Query: 333 DIVTFSECIKRSGYSSPIRTPRGLDILAACGQL 365 I+ F++ ++R G +R RG D+ AACGQL Sbjct: 298 QILAFADVLERRGVPVSVRWSRGRDVGAACGQL 330 >gnl|CDD|184688 PRK14457, PRK14457, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 345 Score = 258 bits (661), Expect = 2e-69 Identities = 138/375 (36%), Positives = 203/375 (54%), Gaps = 39/375 (10%) Query: 6 KESLIGMMREELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRH-LL 64 + L+G ELE+ + G P R Q+ W+Y +G+R +S + + R L Sbjct: 1 MKPLLGRSLAELEDWAVAQGQPA----FRGRQLHDWLYNKGVRSLDEISVLPKAWRESLK 56 Query: 65 NQHFSIIYPEIVDEKISCDGTRKWLLRFPARCIGGPVEIETVYIPEKSRGTLCVSSQVGC 124 + I IV+ ++ DGT K LL I IETV IP + R T+CVSSQVGC Sbjct: 57 DDGVPIGRLTIVERSVAPDGTLKLLLSTEDGEI-----IETVGIPTEKRLTVCVSSQVGC 111 Query: 125 SLTCSFCYTGTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVM 184 + C FC TG L R+L A EI+ QVL + ED++ R++S++V Sbjct: 112 PMACDFCATGKGGLKRSLKAHEIVDQVLTVQ---------EDMQ--------RRVSHVVF 154 Query: 185 MGMGEPLCNFDNVKKSLSIASDSMGLSFSKRRITLSTSGFVPN-IARVGE-------EIG 236 MGMGEPL N D V ++ + +G+ +RRIT+ST G VP I ++ E + Sbjct: 155 MGMGEPLLNIDEVLAAIRCLNQDLGIG--QRRITVSTVG-VPKTIPQLAELAFQRLGRLQ 211 Query: 237 VMLAISLHAVSNDLRNILVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSP 296 LA+SLHA + LR L+P + YP+E L++ CRHY ++ RR++FEY++L G+ND P Sbjct: 212 FTLAVSLHAPNQKLRETLIPSAKNYPIENLLEDCRHYVAIT-GRRVSFEYILLGGVNDLP 270 Query: 297 RDALNLIKILKGIPAKINLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSSPIRTPRGL 356 A L +L+G + +NLIP+NP E+ K I F +++ G + +R RGL Sbjct: 271 EHAEELANLLRGFQSHVNLIPYNPIDEVEFQRPSPKRIQAFQRVLEQRGVAVSVRASRGL 330 Query: 357 DILAACGQLKSLSKR 371 D AACGQL+ ++R Sbjct: 331 DANAACGQLRRNARR 345 >gnl|CDD|172936 PRK14461, PRK14461, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 371 Score = 241 bits (617), Expect = 2e-64 Identities = 133/358 (37%), Positives = 193/358 (53%), Gaps = 21/358 (5%) Query: 16 ELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLLNQHFSIIYPEI 75 EL E L G P R Q+++ +YV M+D+ +R L + + Sbjct: 17 ELTELLTAWGQPA----FRARQLYRHLYVNLADSVLAMTDLPLALRERLTAELPLSTLRL 72 Query: 76 VDEKISCDG-TRKWLLRFPARCIGGPVEIETVYIPEKSRGTLCVSSQVGCSLTCSFCYTG 134 +I +G TRK L R P G V +ETV + R T+CVS+Q GC + C FC TG Sbjct: 73 EQVQIGDNGLTRKALFRLP----DGAV-VETVLMIYPDRATVCVSTQAGCGMGCVFCATG 127 Query: 135 TQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVMMGMGEPLCNF 194 T L+RNL++ EI+ QV+ A L G + P VGR ++N+V MGMGEP N+ Sbjct: 128 TLGLLRNLSSGEIVAQVIWASRELRAM-GAAISKRHAGP-VGR-VTNLVFMGMGEPFANY 184 Query: 195 DNVKKSLSIASDSMGLSFSKRRITLSTSGFVPNIARVGEE-IGVMLAISLHAVSNDLRNI 253 D +++ D G + R +T+ST G V I R+ E + + LAISLHA + LR+ Sbjct: 185 DRWWQAVERLHDPQGFNLGARSMTVSTVGLVKGIRRLANERLPINLAISLHAPDDALRSE 244 Query: 254 LVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSPRDALNLIKILKG----- 308 L+P+NR+YP+ L+ A R Y RR++FEYV+L+G ND P A L ++L+G Sbjct: 245 LMPVNRRYPIADLMAATRDYIA-KTRRRVSFEYVLLQGKNDHPEQAAALARLLRGEAPPG 303 Query: 309 -IPAKINLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSSPIRTPRGLDILAACGQL 365 + +NLIP+NP PG S+++ + TF + G +R RG++I AACGQL Sbjct: 304 PLLVHVNLIPWNPVPGTPLGRSERERVTTFQRILTDYGIPCTVRVERGVEIAAACGQL 361 >gnl|CDD|184689 PRK14459, PRK14459, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 373 Score = 234 bits (598), Expect = 4e-62 Identities = 128/369 (34%), Positives = 189/369 (51%), Gaps = 36/369 (9%) Query: 9 LIGMMREELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLLNQHF 68 L + E EA+ ++G+P R Q+ + + R D M+D+ R L + Sbjct: 24 LADLTPAERREAVAELGLP----AFRAKQLARHYFGRLTADPAQMTDLPAAAREELAEAL 79 Query: 69 SIIYPEIVDE--KISCDG--TRKWLLRFPARCIGGPVEIETVYIPEKSRGTLCVSSQVGC 124 +P ++ + D TRK L R G + +E+V + R TLC+SSQ GC Sbjct: 80 ---FPTLLTPVRTLEADDGTTRKTLWRL----HDGTL-VESVLMRYPDRATLCISSQAGC 131 Query: 125 SLTCSFCYTGTQKLVRNLTAEEILLQVLLARSLL--GDFPGCEDIEGMVIPSVGRKISNI 182 + C FC TG L RNL+ EI+ QV A L G+ PG GR +SN+ Sbjct: 132 GMACPFCATGQGGLTRNLSTAEIVEQVRAAARALRDGEVPG----------GPGR-LSNV 180 Query: 183 VMMGMGEPLCNFDNVKKSLS--IASDSMGLSFSKRRITLSTSGFVPNIARV-GEEIGVML 239 V MGMGEPL N+ V ++ A GL S R +T+ST G VP I ++ E + V L Sbjct: 181 VFMGMGEPLANYKRVVAAVRRITAPAPEGLGISARNVTVSTVGLVPAIRKLADEGLPVTL 240 Query: 240 AISLHAVSNDLRNILVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSPRDA 299 A+SLHA ++LR+ LVP+N ++ ++ ++DA R+Y + RR++ EY +++ IND P A Sbjct: 241 AVSLHAPDDELRDELVPVNTRWKVDEVLDAARYYADAT-GRRVSIEYALIRDINDQPWRA 299 Query: 300 LNLIKILK---GIPAKINLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSSPIRTPRGL 356 L K L G +NLIP NP PG ++ S + F ++ +G +R RG Sbjct: 300 DLLGKKLHGRGGGWVHVNLIPLNPTPGSKWTASPPEVEREFVRRLRAAGVPCTVRDTRGQ 359 Query: 357 DILAACGQL 365 +I ACGQL Sbjct: 360 EIDGACGQL 368 >gnl|CDD|172932 PRK14456, PRK14456, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 368 Score = 220 bits (561), Expect = 6e-58 Identities = 128/370 (34%), Positives = 188/370 (50%), Gaps = 34/370 (9%) Query: 6 KESLIGMMREELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLLN 65 +++ + R+EL E L ++G P R +Q+ +W++ F+ M+ +S+ +R L Sbjct: 17 LQNIRNLRRQELTELLARLGEPA----WRAAQLHQWLFSHRALSFEEMTTLSKPLRRKLA 72 Query: 66 QHFSIIYPEIVDEKISCDG-----TRKWLLRFPARCIGGPVEIETVYIPEKSRGTLCVSS 120 + F+I P + +G T K L++ P +ETV IP R T C+SS Sbjct: 73 ESFAIQPPVTEKHDETMEGSPAGPTEKLLIKLP-----DGELVETVLIPGPERMTACISS 127 Query: 121 QVGCSLTCSFCYTGTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKIS 180 Q GC+L CSFC TG RNLTA EI QV +L + + R I+ Sbjct: 128 QAGCALRCSFCATGQMGFRRNLTAGEITGQVFALSDMLAE------------RNRERGIT 175 Query: 181 NIVMMGMGEPLCNFDNVKKSLSIASD-SMGLSFSKRRITLSTSGFVPNIARVGEE-IGVM 238 NIV MGMGEPL N DNV +++ S S S+R+IT+ST G P I R+ + Sbjct: 176 NIVFMGMGEPLLNTDNVFEAVLTLSTRKYRFSISQRKITISTVGITPEIDRLATSGLKTK 235 Query: 239 LAISLHAVSNDLRNILVPI-NRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSPR 297 LA+SLH+ + R L+P R YPL+ L +A Y + +T Y++L+GINDSP Sbjct: 236 LAVSLHSADQEKRERLMPQAARDYPLDELREALIGYASKT-GEPVTLVYMLLEGINDSPE 294 Query: 298 DALNLIKILKGIPAKINLIPFNPWPGCEY--LCSDQKDIVTFSECIKRSGYSSPIRTPRG 355 DA LI+ KINLI +N ++ +CS ++ F + + +G +R G Sbjct: 295 DARKLIRFASRFFCKINLIDYNSIVNIKFEPVCSSTRER--FRDRLLDAGLQVTVRKSYG 352 Query: 356 LDILAACGQL 365 I AACGQL Sbjct: 353 TTINAACGQL 362 >gnl|CDD|172940 PRK14465, PRK14465, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 342 Score = 190 bits (484), Expect = 5e-49 Identities = 126/370 (34%), Positives = 186/370 (50%), Gaps = 43/370 (11%) Query: 9 LIGMMREELEEALLKIGIPQRHVRMRTSQIWKWIYVRGIRDFQGMSDISQEVRHLLNQHF 68 L G +EL E ++ +G + R QI+ +YV + + S+EV+ L + Sbjct: 7 LKGRTLKELSEIMVSLGEK----KFRAKQIYHGLYVNRYETWDQFTTFSKEVKEKLEELC 62 Query: 69 SIIYPEIVDEKISCDGTRKWLLRFPARCIGGPVEIETVYIP--EKSRGTLCVSSQVGCSL 126 S+ E+V + S DGT+K+ G E E V+IP + R T+C+SSQ+GC+L Sbjct: 63 SLTELEVVKDLKSVDGTQKFTF-----YSGEGKEFEAVWIPSGDGGRKTICISSQIGCTL 117 Query: 127 TCSFCYTGTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVMMG 186 C FC T + NL A EI+ QVL ++GD + +N+V MG Sbjct: 118 NCKFCATAKLEFQGNLKAHEIVDQVLQVEKIVGD-----------------RATNVVFMG 160 Query: 187 MGEPLCNFDNVKKSLSIASDSMGLSFSKRRITLSTSGFVPNIARVGE-EIGVMLAISLHA 245 MGEP+ N+ NV ++ SI D + +RIT+STSG V I R E + AISL+ Sbjct: 161 MGEPMHNYFNVIRAASILHDPDAFNLGAKRITISTSGVVNGIRRFIENKEPYNFAISLNH 220 Query: 246 VSNDLRNILVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSPRDALNLIKI 305 + R ++ I K+PLE L+ A + + RRITFEYVM+ G+N +A L+KI Sbjct: 221 PDPNGRLQIMDIEEKFPLEELLQAAKDFTR-ELKRRITFEYVMIPGVNMGRENANKLVKI 279 Query: 306 LKGIPAKINLIPFNPWPGCEYLC---SDQKDIVTFSECIKRSGYSSPI---RTPRGLDIL 359 + + KIN+IP N E+ ++ F ++ +G PI R+P G DI Sbjct: 280 ARSLDCKINVIPLN----TEFFGWRRPTDDEVAEFIMLLEPAG--VPILNRRSP-GKDIF 332 Query: 360 AACGQLKSLS 369 ACG L S S Sbjct: 333 GACGMLASKS 342 >gnl|CDD|184685 PRK14453, PRK14453, chloramphenicol/florfenicol resistance protein; Provisional. Length = 347 Score = 182 bits (463), Expect = 2e-46 Identities = 112/345 (32%), Positives = 166/345 (48%), Gaps = 41/345 (11%) Query: 34 RTSQIWKWIYVRGIRDFQGMSDISQEVRHLLNQHF--SIIYPEIVDEKISCDGTRKWLLR 91 R QI K I+ + I +F+ M + + +R L F +++ V E+ S T K L Sbjct: 23 RYEQITKAIFKQRIDNFEDMHILPKALRESLINEFGKNVLSVIPVFEQDSKQVT-KVLFE 81 Query: 92 FPARCIGGPVEIETVYIPEKSRG--TLCVSSQVGCSLTCSFCYTGTQKLVRNLTAEEILL 149 IE V + K +G + C+SSQ GC C FC TG+ L RNLTA+EI Sbjct: 82 LT-----DGERIEAVGLKYK-QGWESFCISSQCGCGFGCRFCATGSIGLKRNLTADEITD 135 Query: 150 QVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVMMGMGEPLCNFDNVKKSLSIASDSMG 209 Q+L G ++ +I MGMGE L N + +L I +D Sbjct: 136 QLLYFYLN------------------GHRLDSISFMGMGEALAN-PELFDALKILTDPNL 176 Query: 210 LSFSKRRITLSTSGFVPNIARVGEEI-GVMLAISLHAVSNDLRNILVPINRKYPLEMLID 268 S+RRIT+ST G +P I R+ +E V L SLH+ R+ L+PIN+++PL ++ Sbjct: 177 FGLSQRRITISTIGIIPGIQRLTQEFPQVNLTFSLHSPFESQRSELMPINKRFPLNEVMK 236 Query: 269 AC-RHYPGLSNARRITFEYVMLKGINDSPRDALNLIKILKGIPA-----KINLIPFNPWP 322 H R++ Y+ML+G+NDS A ++ +L+ + +NLIP+N Sbjct: 237 TLDEHI--RHTGRKVYIAYIMLEGVNDSKEHAEAVVGLLRNRGSWEHLYHVNLIPYNSTD 294 Query: 323 GC--EYLCSDQKDIVTFSECIKRSGYSSPIRTPRGLDILAACGQL 365 ++ S I F +K +G S +RT G DI AACGQL Sbjct: 295 KTPFKFQSSSAGQIKQFCSTLKSAGISVTVRTQFGSDISAACGQL 339 >gnl|CDD|172945 PRK14470, PRK14470, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 336 Score = 173 bits (439), Expect = 8e-44 Identities = 105/289 (36%), Positives = 145/289 (50%), Gaps = 29/289 (10%) Query: 83 DGTRKWLLRFPARCIGGPVEIETVYIP-EKSRGTLCVSSQVGCSLTCSFCYTGTQKLVRN 141 DG RK+L P G +E V IP + +C+SSQ GC+L C+FC TG L R+ Sbjct: 70 DGFRKYLFELP---DGL--RVEAVRIPLFDTHHVVCLSSQAGCALGCAFCATGKLGLDRS 124 Query: 142 LTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVMMGMGEPLCNFDNVKKSL 201 L + EI+ Q+L R D E R I+ +V MG GEP N+D V ++ Sbjct: 125 LRSWEIVAQLLAVR---------ADSE--------RPITGVVFMGQGEPFLNYDEVLRAA 167 Query: 202 SIASDSMGLSFSKRRITLSTSGFVPNIAR-VGEEIGVMLAISLHAVSNDLRNILVPINRK 260 D G RRI++ST+G VP I R E L ISL+A R L+PI + Sbjct: 168 YALCDPAGARIDGRRISISTAGVVPMIRRYTAEGHKFRLCISLNAAIPWKRRALMPIEQG 227 Query: 261 YPLEMLIDACRHYPGLSNARRITFEYVMLKGINDSPRDALNLIKILKGIPAKINLIPFNP 320 +PL+ L++A R + L R+T EYVM+ G+N DA L ++L GIP ++N I N Sbjct: 228 FPLDELVEAIREHAALRG--RVTLEYVMISGVNVGEEDAAALGRLLAGIPVRLNPIAVND 285 Query: 321 WPGCEYLCSDQKDIVTFSECIKRSGYSSPI--RTPRGLDILAACGQLKS 367 G Y D+ + F + + R +P+ R G D AACG L S Sbjct: 286 ATG-RYRPPDEDEWNAFRDALARELPGTPVVRRYSGGQDEHAACGMLAS 333 >gnl|CDD|184691 PRK14464, PRK14464, ribosomal RNA large subunit methyltransferase N; Provisional. Length = 344 Score = 143 bits (362), Expect = 8e-35 Identities = 90/288 (31%), Positives = 140/288 (48%), Gaps = 42/288 (14%) Query: 103 IETVYIPEKSRGTLCVSSQVGCSLTCSFCYTGTQKLVRNLTAEEILLQVLLARSLLGDFP 162 +E+V +P R LCVS+QVGC++ C FC TG L+R L + EI+ QV+LAR Sbjct: 88 VESVLLP---RDGLCVSTQVGCAVGCVFCMTGRSGLLRQLGSAEIVAQVVLARRR----- 139 Query: 163 GCEDIEGMVIPSVGRKISNIVMMGMGEPLCNFDNVKKSLSIASDSMGLSFSKRRITLSTS 222 R + +V MGMGEP N DNV +++ + G+ + + ST Sbjct: 140 --------------RAVKKVVFMGMGEPAHNLDNVLEAIDLLGTEGGI--GHKNLVFSTV 183 Query: 223 GFVPNIARVGEEIGVM-----LAISLHAVSNDLRNILVPINRKYPLEMLIDACRHYPGLS 277 G RV E + LA+SLH +LR L+P + E L++ Y Sbjct: 184 G----DPRVFERLPQQRVKPALALSLHTTRAELRARLLPRAPRIAPEELVELGEAY---- 235 Query: 278 NARR----ITFEYVMLKGINDSPRDALNLIKILKGIPAKINLIPFNPWPGCEYLCSDQKD 333 AR I +++ +L+G+NDS + ++++LKG A +NLIP+N G Y + Sbjct: 236 -ARATGYPIQYQWTLLEGVNDSDEEMDGIVRLLKGKYAVMNLIPYNSVDGDAYRRPSGER 294 Query: 334 IVTFSECIKRSGYSSPIRTPRGLDILAACGQLKSLSKRIPKVPRQEMQ 381 IV + + R G + +R G D+ CGQL++ + + V R + Sbjct: 295 IVAMARYLHRRGVLTKVRNSAGQDVDGGCGQLRARAAKAAAVRRIRRR 342 >gnl|CDD|128968 smart00729, Elp3, Elongator protein 3, MiaB family, Radical SAM. This superfamily contains MoaA, NifB, PqqE, coproporphyrinogen III oxidase, biotin synthase and MiaB families, and includes a representative in the eukaryotic elongator subunit, Elp-3. Some members of the family are methyltransferases. Length = 216 Score = 36.2 bits (84), Expect = 0.015 Identities = 39/207 (18%), Positives = 86/207 (41%), Gaps = 28/207 (13%) Query: 123 GCSLTCSFCYTGTQ-KLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISN 181 GC C+FC + +R+ E ++ +IE + + Sbjct: 10 GCPRRCTFCSFPSARGKLRSRYLEALV----------------REIELLAEKGEKEILVG 53 Query: 182 IVMMGMGEPLCN-FDNVKKSLSIASDSMGLSFSKRRITLSTSGFV-PNIARVGEEIGV-M 238 V +G G P + +++ L + +GL+ + G + + +E GV Sbjct: 54 TVFIGGGTPTLLSPEQLEELLEAIREILGLADDVEITIETRPGTLTEELLEALKEAGVNR 113 Query: 239 LAISLHAVSNDLRNILVPINRKYPLEMLIDACRHYPGLSNARRITFEYVMLKGI-NDSPR 297 +++ + + S+++ INR + +E +++A L A I ++ G+ ++ Sbjct: 114 VSLGVQSGSDEVLKA---INRGHTVEDVLEAVEK---LREAGPIKVSTDLIVGLPGETEE 167 Query: 298 DALNLIKILKGI-PAKINLIPFNPWPG 323 D +K+LK + P ++++ P +P PG Sbjct: 168 DFEETLKLLKELGPDRVSIFPLSPRPG 194 >gnl|CDD|131546 TIGR02493, PFLA, pyruvate formate-lyase 1-activating enzyme. An iron-sulfur protein with a radical-SAM domain (pfam04055). A single glycine residue in EC 2.3.1.54, formate C-acetyltransferase (formate-pyruvate lyase), is oxidized to the corresponding radical by transfer of H from its CH2 to AdoMet with concomitant cleavage of the latter. The reaction requires Fe2+. The first stage is reduction of the AdoMet to give methionine and the 5'-deoxyadenosin-5-yl radical, which then abstracts a hydrogen radical from the glycine residue. Length = 235 Score = 33.5 bits (77), Expect = 0.088 Identities = 43/216 (19%), Positives = 76/216 (35%), Gaps = 62/216 (28%) Query: 123 GCSLTCSFCY---TGTQKLVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKI 179 GC L C +C+ T K +T EE++ +V + G G Sbjct: 24 GCPLRCQYCHNPDTWDLKGGTEVTPEELIKEVGSYKDFFKASGGGVTFSG---------- 73 Query: 180 SNIVMMGMGEPLCNFDNVKKSLSIASDSMGLSFSKRRITLSTSGFVPNIARVGEEIGVML 239 GEPL + + + A +G+ L TSGF+ +E +L Sbjct: 74 --------GEPLLQPEFLSELFK-ACKELGI-----HTCLDTSGFLGGCTEAADE---LL 116 Query: 240 AISLHAVSNDLRNILVPINRKYPLEMLIDACRHYP--GLSNARRITF------------- 284 + DL +L+ I + ++ G+S + F Sbjct: 117 EYT------DL--VLLDIKH-------FNPEKYKKLTGVSLQPTLDFAKYLAKRNKPIWI 161 Query: 285 EYVMLKGINDSPRDALNLIKILKGIP--AKINLIPF 318 YV++ G DS D L + +K +P ++ ++P+ Sbjct: 162 RYVLVPGYTDSEEDIEALAEFVKTLPNVERVEVLPY 197 >gnl|CDD|132492 TIGR03451, mycoS_dep_FDH, mycothiol-dependent formaldehyde dehydrogenase. Members of this protein family are mycothiol-dependent formaldehyde dehydrogenase (EC 1.2.1.66). This protein is found, so far, only in the Actinobacteria (Mycobacterium sp., Streptomyces sp., Corynebacterium sp., and related species), where mycothione replaces glutathione. Length = 358 Score = 30.2 bits (68), Expect = 0.96 Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 5/40 (12%) Query: 94 ARCIGGPVEIETVYIPEKSRGTLCVSSQVGCSLTCSFCYT 133 AR G PVE+ET+ +P+ G + V Q C C+T Sbjct: 7 ARSKGAPVELETIVVPDPGPGEVIVDIQ-----ACGVCHT 41 >gnl|CDD|183094 PRK11347, PRK11347, antitoxin ChpS; Provisional. Length = 83 Score = 29.6 bits (66), Expect = 1.5 Identities = 21/60 (35%), Positives = 36/60 (60%), Gaps = 7/60 (11%) Query: 216 RITL----STSGFV-PNIARVGEEIGVMLAISLHAVSNDLRNILVPINRKYPLEMLIDAC 270 RIT+ +++G V PNI V +E+ + S+ A ++ + IL PI+R+Y L+ L+ C Sbjct: 2 RITIKRWGNSAGMVIPNI--VMKELNLQPGQSVEAQVSNNQLILTPISRRYSLDELLAQC 59 >gnl|CDD|165022 PHA02639, PHA02639, EEV host range protein; Provisional. Length = 295 Score = 28.5 bits (63), Expect = 2.9 Identities = 10/36 (27%), Positives = 20/36 (55%) Query: 53 MSDISQEVRHLLNQHFSIIYPEIVDEKISCDGTRKW 88 M + E+ ++ N+H + Y + +EKI+C + W Sbjct: 102 MYKVGDEIYYVCNEHKGVQYSLVGNEKITCIQDKSW 137 >gnl|CDD|184623 PRK14326, PRK14326, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional. Length = 502 Score = 27.7 bits (62), Expect = 4.7 Identities = 9/14 (64%), Positives = 11/14 (78%) Query: 118 VSSQVGCSLTCSFC 131 VS VGC+ TC+FC Sbjct: 161 VSISVGCNNTCTFC 174 >gnl|CDD|183496 PRK12393, PRK12393, amidohydrolase; Provisional. Length = 457 Score = 27.7 bits (62), Expect = 5.2 Identities = 19/68 (27%), Positives = 24/68 (35%), Gaps = 22/68 (32%) Query: 256 PINRKYPLEMLIDA--CRHYPGLSNARRITFEYVMLKGINDSPRDALNLIKILKGIPAKI 313 + P E +IDA C YPG N F+ +LKG+PA I Sbjct: 40 ALTPL-PGERVIDATDCVVYPGWVNTHHHLFQ------------------SLLKGVPAGI 80 Query: 314 NLIPFNPW 321 N W Sbjct: 81 NQ-SLTAW 87 >gnl|CDD|162888 TIGR02495, NrdG2, anaerobic ribonucleoside-triphosphate reductase activating protein. This enzyme is a member of the radical-SAM family (pfam04055). It is often gene clustered with the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487) and presumably fulfills the identical function as NrdG which utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin) to produce a glycine-centered radical in NrdD. Length = 191 Score = 27.0 bits (60), Expect = 7.9 Identities = 21/78 (26%), Positives = 30/78 (38%), Gaps = 13/78 (16%) Query: 97 IGGPVEIETVYIPEKSRGTLCVSSQVGCSLTCSFCYTGTQKLVR--NLTAEEILLQVLLA 154 I G V + P K T+ GC+L C +C+ E LL+ L + Sbjct: 2 IAGLVPFSMLDYPGKLAFTIFFQ---GCNLKCPYCHNPELIDREGSGEIEVEFLLEFLRS 58 Query: 155 RSLLGDFPGCEDIEGMVI 172 R L I+G+VI Sbjct: 59 RQGL--------IDGVVI 68 >gnl|CDD|161682 TIGR00050, rRNA_methyl_1, RNA methyltransferase, TrmH family, group 1. This is part of the trmH (spoU) family of S-adenosyl-L-methionine (AdoMet)-dependent methyltransferases, and is now characterized, in E. coli, as a tRNA:Cm32/Um32 methyltransferase. It may be named TrMet(Xm32), or TrmJ, according to the nomenclature style chosen. Length = 233 Score = 27.0 bits (60), Expect = 8.2 Identities = 11/32 (34%), Positives = 16/32 (50%) Query: 14 REELEEALLKIGIPQRHVRMRTSQIWKWIYVR 45 E LEE LL +G H R + ++ +Y R Sbjct: 179 LEHLEEILLSLGFIPEHKIRRVMRKFRRLYGR 210 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.323 0.140 0.421 Gapped Lambda K H 0.267 0.0642 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 6,312,592 Number of extensions: 407324 Number of successful extensions: 912 Number of sequences better than 10.0: 1 Number of HSP's gapped: 829 Number of HSP's successfully gapped: 35 Length of query: 384 Length of database: 5,994,473 Length adjustment: 95 Effective length of query: 289 Effective length of database: 3,941,713 Effective search space: 1139155057 Effective search space used: 1139155057 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 58 (26.3 bits)