Align methionine synthase (EC 2.1.1.13) (characterized)
to candidate Ac3H11_3274 5-methyltetrahydrofolate--homocysteine methyltransferase (EC 2.1.1.13)
Query= BRENDA::P13009 (1227 letters) >FitnessBrowser__acidovorax_3H11:Ac3H11_3274 Length = 903 Score = 1052 bits (2721), Expect = 0.0 Identities = 566/908 (62%), Positives = 666/908 (73%), Gaps = 32/908 (3%) Query: 341 RLSGLEPLNIGEDSLFVNVGERTNVTGSAKFKRLIKEEKYSEALDVARQQVENGAQIIDI 400 +LSGLEP++IGE +LFVN+GERTNVTGS F R+I +Y EAL VARQQVENGAQ+IDI Sbjct: 2 KLSGLEPVSIGEGTLFVNIGERTNVTGSKAFARMILNGQYEEALAVARQQVENGAQVIDI 61 Query: 401 NMDEGMLDAEAAMVRFLNLIAGEPDIARVPIMIDSSKWDVIEKGLKCIQGKGIVNSISMK 460 NMDE MLD++AAMVRFL LIA EPDIARVPIM+DSSKWDVIE GL+CIQGKGIVNSISMK Sbjct: 62 NMDEAMLDSKAAMVRFLQLIASEPDIARVPIMVDSSKWDVIEAGLRCIQGKGIVNSISMK 121 Query: 461 EGVDAFIHHAKLLRRYGAAVVVMAFDEQGQADTRARKIEICRRAYKILTEEVGFPPEDII 520 EGV+ F H A+L+RRYGAA VVMAFDE GQADT ARKIEIC RAY++L +EVGFPPEDII Sbjct: 122 EGVEKFKHEARLVRRYGAAAVVMAFDEVGQADTYARKIEICERAYRVLVDEVGFPPEDII 181 Query: 521 FDPNIFAVATGIEEHNNYAQDFIGACEDIKRELPHALISGGVSNVSFSFRGNDPVREAIH 580 FDPNIFAVATGIEEHNNYA DFI A IK+ LP A +SGGVSNVSFSFRGNDPVREAIH Sbjct: 182 FDPNIFAVATGIEEHNNYAVDFIEATRWIKQNLPGAKVSGGVSNVSFSFRGNDPVREAIH 241 Query: 581 AVFLYYAIRNGMDMGIVNAGQLAIYDDLPAELRDAVEDVILNRRDDGTERLLELAEKYRG 640 VFLY+AI+ GMDMGIVNAG + +YDDL LR+ VEDV+LNRR D ERL+E+AE + Sbjct: 242 TVFLYHAIQAGMDMGIVNAGMVGVYDDLEPVLRERVEDVVLNRRADAGERLVEIAETAKS 301 Query: 641 SKTDDTANAQQAEWRSW-----EVNKRLEYSLVKGITEFIEQDTEEARQ----QATRPIE 691 D+ +++ EWR V +RL ++LV GIT+FI +DTEEA Q + RP+ Sbjct: 302 GAKDE---SKKLEWRGTPEHPKTVGERLSHALVHGITDFIVEDTEEAYQAIVAKGGRPLH 358 Query: 692 VIEGPLMDGMNVVGDLFGEGKMFLPQVVKSARVMKQAVAYLEPFIEASKEQG-------K 744 VIEGPLMDGMNVVGDLFG GKMFLPQVVKSARVMK AVA+L P+IE K Q + Sbjct: 359 VIEGPLMDGMNVVGDLFGAGKMFLPQVVKSARVMKSAVAHLIPYIEEEKRQDELAGRDVR 418 Query: 745 TNGKMVIATVKGDVHDIGKNIVGVVLQCNNYEIVDLGVMVPAEKILRTAKEVNADLIGLS 804 + GK++IATVKGDVHDIGKNIV VVLQCNN+E+V++GVMVP +IL AK AD++GLS Sbjct: 419 SKGKIIIATVKGDVHDIGKNIVTVVLQCNNFEVVNMGVMVPCHEILARAKVEGADIVGLS 478 Query: 805 GLITPSLDEMVNVAKEMERQGF----TIPLLIGGATTSKAHTAVKIEQNYSGPTVYVQNA 860 GLITPSL+EM VA EM++ IPLLIGGATTS+ HTAVKI +Y GP VYV +A Sbjct: 479 GLITPSLEEMQYVAGEMQKDDHFRIKKIPLLIGGATTSRVHTAVKIAPHYEGPVVYVPDA 538 Query: 861 SRTVGVVAALLSDTQRDDFVARTRKEYETVRIQHGRKKPRTPPVTLEAARDNDFAFDWQA 920 SR+V V +LL D + ++V +YE VR QH KK +TP +LE AR N ++ Sbjct: 539 SRSVSVAQSLLGDGVQ-NYVQELNADYEKVRTQHANKK-QTPMWSLEKARANRTPVNFST 596 Query: 921 YTPPVAHRLGVQEVE-ASIETLRNYIDWTPFFMTWSLAGKYPRILEDEVVGVEAQRLFKD 979 Y PP LG + + + L YIDW PFF TW LAG YP IL DEVVGVEA R+F D Sbjct: 597 YVPPTPRLLGRRVFKNFDLAELAKYIDWGPFFQTWDLAGPYPAILTDEVVGVEATRVFAD 656 Query: 980 ANDMLDKLSAEKTLNPRGVVGLFPANRVGDDIEIYRDETRTHVINVSHHLRQQTEKTGF- 1038 ML KL + L+ GV+ L+PAN VGDDIE Y DETRT V + +RQQTEK Sbjct: 657 GQAMLKKLIEGRWLSASGVMALYPANSVGDDIEFYTDETRTQVAMTWYGMRQQTEKQMID 716 Query: 1039 ----ANYCLADFVAPKLSGKADYIGAFAVTGGLEEDALADAFEAQHDDYNKIMVKALADR 1094 + CLADFVAPK SG ADY G FAVT GL + AF DDY+ IM+K+LADR Sbjct: 717 GVMRPSRCLADFVAPKDSGIADYAGLFAVTAGLGVEKKEQAFVDALDDYSAIMLKSLADR 776 Query: 1095 LAEAFAEYLHERVRKVYWGYAPNENLSNEELIRENYQGIRPAPGYPACPEHTEKATIWEL 1154 LAEAFAE LH+RVR WGYA E LSN+E+I E Y GIRPAPGYPACP+H+ K ++ + Sbjct: 777 LAEAFAECLHQRVRTDLWGYAAGEQLSNDEMIAEKYAGIRPAPGYPACPDHSAKQELFRV 836 Query: 1155 LEVEKHTGMKLTESFAMWPGASVSGWYFSHPDSKYYAVAQIQRDQVEDYARRKGMSVTEV 1214 L+ E+ GM LTES AM P ASVSG+Y HPDS Y+ V +I DQ+ D A R+GM + Sbjct: 837 LQCEE-IGMGLTESLAMTPAASVSGFYIGHPDSVYFNVGKIGEDQLHDMAERRGMDEKVL 895 Query: 1215 ERWLAPNL 1222 ER LAPNL Sbjct: 896 ERLLAPNL 903 Lambda K H 0.318 0.134 0.391 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 1 Number of Hits to DB: 2674 Number of extensions: 118 Number of successful extensions: 11 Number of sequences better than 1.0e-02: 1 Number of HSP's gapped: 2 Number of HSP's successfully gapped: 1 Length of query: 1227 Length of database: 903 Length adjustment: 45 Effective length of query: 1182 Effective length of database: 858 Effective search space: 1014156 Effective search space used: 1014156 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 58 (26.9 bits)
Align methionine synthase (EC 2.1.1.13) (characterized)
to candidate Ac3H11_3297 5-methyltetrahydrofolate--homocysteine methyltransferase (EC 2.1.1.13)
Query= BRENDA::P13009 (1227 letters) >FitnessBrowser__acidovorax_3H11:Ac3H11_3297 Length = 354 Score = 371 bits (953), Expect = e-107 Identities = 186/344 (54%), Positives = 253/344 (73%), Gaps = 15/344 (4%) Query: 3 SKVEQLRAQLNERILVLDGGMGTMIQSYRLNEADFRGE----------RFADWPCDLKGN 52 ++ QL L +RI++LDG MGTMIQ ++L EA +RGE RF D+ D+KGN Sbjct: 7 TRAAQLPDILAQRIVILDGAMGTMIQRFKLGEAQYRGEGYTGPGKAGDRFKDFAYDVKGN 66 Query: 53 NDLLVLSKPEVIAAIHNAYFEAGADIIETNTFNSTTIAMADYQMESLSAEINFAAAKLAR 112 N+LL L++P+VI+ IH Y AGAD+IETNTF +TTIA DY M +L+ E+N +A+LAR Sbjct: 67 NELLSLTRPDVISDIHERYLAAGADLIETNTFGATTIAQEDYHMANLAREMNLRSAELAR 126 Query: 113 ACADEWTARTPEKPRYVAGVLGPTNRTASISPDVNDPAFRNITFDGLVAAYRESTKALVE 172 A D+++ TP+KPR+VAG LGPT +TASISPDVNDP RN+ F+ L AAY E T+ALVE Sbjct: 127 AACDKYS--TPDKPRFVAGALGPTPKTASISPDVNDPGARNVDFEALRAAYYEQTEALVE 184 Query: 173 GGADLILIETVFDTLNAKAAVFAVKTEFEALGVELPIMISGTITDASGRTLSGQTTEAFY 232 GG+D++L+ET+FDTLNAKAA+FA+ FE G LP++ISGT+TDASGR LSGQT AF+ Sbjct: 185 GGSDVLLVETIFDTLNAKAALFAIDEYFENSGQRLPLIISGTVTDASGRILSGQTVTAFW 244 Query: 233 NSLRHAEALTFGLNCALGPDELRQYVQELSRIAE-CYVTAHPNAGLPNAFGE--YDLDAD 289 +S+RH+ L GLNCALG +R Y+QEL+R+AE +++ +PNAGLPN + +D + Sbjct: 245 HSVRHSRPLAIGLNCALGATLMRPYIQELNRVAEDTFISCYPNAGLPNPMSDTGFDETPE 304 Query: 290 TMAKQIREWAQAGFLNIVGGCCGTTPQHIAAMSRAVEGLAPRKL 333 ++ + E+A G +NI+GGCCGTTP HI A+++AVE + RK+ Sbjct: 305 ITSRLVHEFAAEGLVNILGGCCGTTPDHIGAIAKAVESVPTRKM 348 Lambda K H 0.318 0.134 0.391 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 1 Number of Hits to DB: 1007 Number of extensions: 32 Number of successful extensions: 5 Number of sequences better than 1.0e-02: 1 Number of HSP's gapped: 1 Number of HSP's successfully gapped: 1 Length of query: 1227 Length of database: 354 Length adjustment: 38 Effective length of query: 1189 Effective length of database: 316 Effective search space: 375724 Effective search space used: 375724 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 54 (25.4 bits)
Align candidate Ac3H11_3274 (5-methyltetrahydrofolate--homocysteine methyltransferase (EC 2.1.1.13))
to HMM TIGR02082 (metH: methionine synthase (EC 2.1.1.13))
../bin/blast/fastacmd -i /tmp/list.26171.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.26171.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.
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