-- dump date 20140620_064924 -- class Genbank::Feature -- table feature -- table main -- field 1 id -- field 2 type -- field 3 name -- field 4 contig -- field 5 start_pos -- field 6 end_pos -- field 7 strand -- field 8 description -- field 9 chrom_position -- field 10 organism -- field 11 GeneID -- header -- id type name contig start_pos end_pos strand description chrom_position organism GeneID 300268000001 SEQ_END SEQ_END NC_007608.1 126697 126697 DR NC_007608.1; contig end 126697..126697 Shigella boydii Sb227 300268000002 SEQ_END SEQ_END NC_007613.1 4519823 4519823 DR NC_007613.1; contig end 4519823..4519823 Shigella boydii Sb227 YP_406226.1 CDS SBO_P002 NC_007608.1 191 493 R IS2 ORF2 complement(191..493) Shigella boydii Sb227 3776749 YP_406227.1 CDS SBO_P001 NC_007608.1 485 727 D resolvase, fragment 485..727 Shigella boydii Sb227 3776748 YP_406228.2 CDS SBO_P003 NC_007608.1 804 1709 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(804..1709) Shigella boydii Sb227 3776750 YP_406229.1 CDS SBO_P004 NC_007608.1 1667 2032 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(1667..2032) Shigella boydii Sb227 3776751 YP_406230.1 CDS ospB NC_007608.1 2511 3377 D protein secreted by the Mxi-Spa secretion machinery; OspB 2511..3377 Shigella boydii Sb227 3776752 YP_406231.1 CDS phoN2/apy NC_007608.1 3707 4447 D periplasmic phosphatase; apyrase; ATP diphosphohydrolase; PhoN2 (Apy) 3707..4447 Shigella boydii Sb227 3776753 YP_406232.1 CDS SBO_P007 NC_007608.1 4699 4863 D hypothetical protein 4699..4863 Shigella boydii Sb227 3776754 YP_406233.1 CDS insB NC_007608.1 4986 5489 R IS1 ORF2 complement(4986..5489) Shigella boydii Sb227 3776755 YP_406234.2 CDS SBO_P010 NC_007608.1 6134 7039 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(6134..7039) Shigella boydii Sb227 3776757 YP_406235.1 CDS SBO_P011 NC_007608.1 6997 7362 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(6997..7362) Shigella boydii Sb227 3776758 YP_406236.1 CDS SBO_P012 NC_007608.1 7855 8256 R IS orf, fragment complement(7855..8256) Shigella boydii Sb227 3776759 YP_406237.1 CDS SBO_P013 NC_007608.1 8336 8758 R IS600 ORF2 complement(8336..8758) Shigella boydii Sb227 3776760 YP_406238.1 CDS SBO_P014 NC_007608.1 8794 9096 R IS600 ORF1 complement(8794..9096) Shigella boydii Sb227 3776761 YP_406239.1 CDS SBO_P015 NC_007608.1 9387 9704 D hypothetical protein 9387..9704 Shigella boydii Sb227 3776762 YP_406240.1 CDS ospD2 NC_007608.1 9786 11495 R probably secreted by the Mxi-Spa secretion machinery; OspD2 complement(9786..11495) Shigella boydii Sb227 3776763 YP_406241.1 CDS ospF NC_007608.1 11927 12646 R secreted by the Mxi-Spa secretion machinery; OspF complement(11927..12646) Shigella boydii Sb227 3776764 YP_406242.1 CDS SBO_P018 NC_007608.1 12771 13355 R hypothetical protein complement(12771..13355) Shigella boydii Sb227 3776765 YP_406243.1 CDS SBO_P019 NC_007608.1 13685 14263 R hypothetical protein complement(13685..14263) Shigella boydii Sb227 3776767 YP_406244.1 CDS SBO_P020 NC_007608.1 15229 15585 R IS91 orf complement(15229..15585) Shigella boydii Sb227 3776768 YP_406245.1 CDS SBO_P021 NC_007608.1 15585 15770 R IS91 ORF2 complement(15585..15770) Shigella boydii Sb227 3776769 YP_406246.1 CDS SBO_P022 NC_007608.1 15933 16217 D transposase 15933..16217 Shigella boydii Sb227 3776770 YP_406247.1 CDS SBO_P023 NC_007608.1 16228 17400 R IS4 orf complement(16228..17400) Shigella boydii Sb227 3776771 YP_406248.1 CDS SBO_P024 NC_007608.1 17712 18017 D IS orf, fragment 17712..18017 Shigella boydii Sb227 3776772 YP_406249.1 CDS SBO_P025 NC_007608.1 18017 18364 D ISSfl4 ORF2 18017..18364 Shigella boydii Sb227 3776773 YP_406250.1 CDS SBO_P026 NC_007608.1 18384 18566 D IS orf, fragment 18384..18566 Shigella boydii Sb227 3776774 YP_406252.1 CDS SBO_P028 NC_007608.1 18645 19028 D hypothetical protein 18645..19028 Shigella boydii Sb227 3776776 YP_406253.1 CDS SBO_P029 NC_007608.1 19041 19616 D IS orf, fragment 19041..19616 Shigella boydii Sb227 3776777 YP_406254.1 CDS SBO_P030 NC_007608.1 20385 20591 D transposase, fragment 20385..20591 Shigella boydii Sb227 3776778 YP_406255.1 CDS ospD1 NC_007608.1 21177 21854 D secreted by the Mxi-Spa secretion machinery; OspD1 21177..21854 Shigella boydii Sb227 3776779 YP_406256.1 CDS SBO_P032 NC_007608.1 22354 22560 R hypothetical protein complement(22354..22560) Shigella boydii Sb227 3776780 YP_406257.1 CDS ipgB2 NC_007608.1 22962 23528 D probably secreted by the Mxi-Spa secretion machinery; IpgB2 22962..23528 Shigella boydii Sb227 3776781 YP_406258.1 CDS SBO_P034 NC_007608.1 24082 24609 D IS3 ORF2 24082..24609 Shigella boydii Sb227 3776782 YP_406259.1 CDS insB NC_007608.1 24863 25366 R IS1 ORF2 complement(24863..25366) Shigella boydii Sb227 3776783 YP_406260.1 CDS SBO_P036 NC_007608.1 26173 26943 D IS100 ORF1 26173..26943 Shigella boydii Sb227 3776784 YP_406261.1 CDS SBO_P037 NC_007608.1 26921 27109 D IS100 ORF1 26921..27109 Shigella boydii Sb227 3776785 YP_406262.1 CDS SBO_P038 NC_007608.1 27135 27461 D IS629 ORF1 27135..27461 Shigella boydii Sb227 3776786 YP_406263.1 CDS SBO_P039 NC_007608.1 27733 28344 D IS629 ORF2 27733..28344 Shigella boydii Sb227 3776787 YP_406264.1 CDS SBO_P040 NC_007608.1 28328 29110 D transposase/IS protein 28328..29110 Shigella boydii Sb227 3776788 YP_406265.1 CDS SBO_P041 NC_007608.1 29171 29515 D iso-IS1 ORF2 29171..29515 Shigella boydii Sb227 3776789 YP_406266.1 CDS SBO_P042 NC_007608.1 29493 29699 D hypothetical protein 29493..29699 Shigella boydii Sb227 3776790 YP_406267.1 CDS parA NC_007608.1 29837 31036 D plasmid segregation protein 29837..31036 Shigella boydii Sb227 3776791 YP_406268.1 CDS parB NC_007608.1 31036 32016 D plasmid segregation protein 31036..32016 Shigella boydii Sb227 3776792 YP_406269.1 CDS SBO_P045 NC_007608.1 32272 32757 D transposase, fragment 32272..32757 Shigella boydii Sb227 3776793 YP_406270.1 CDS SBO_P046 NC_007608.1 33045 34091 R reverse transcriptase complement(33045..34091) Shigella boydii Sb227 3776794 YP_406271.1 CDS SBO_P047 NC_007608.1 34118 34420 R IS911 ORF1 complement(34118..34420) Shigella boydii Sb227 3776795 YP_406272.1 CDS SBO_P048 NC_007608.1 35093 35377 D hypothetical protein 35093..35377 Shigella boydii Sb227 3776796 YP_406273.1 CDS SBO_P049 NC_007608.1 35365 35850 D hypothetical protein 35365..35850 Shigella boydii Sb227 3776797 YP_406274.1 CDS SBO_P050 NC_007608.1 35935 36855 D IS911 ORF2 35935..36855 Shigella boydii Sb227 3776798 YP_406275.1 CDS SBO_P051 NC_007608.1 36913 38040 R transposase complement(36913..38040) Shigella boydii Sb227 3776799 YP_406276.1 CDS virF NC_007608.1 38539 39327 D member of the AraC family of transcriptional activators; required for transcription of virB and icsA; VirF 38539..39327 Shigella boydii Sb227 3776800 YP_406277.1 CDS SBO_P053 NC_007608.1 39887 40096 D ORF A; IS150 ORF1 39887..40096 Shigella boydii Sb227 3776801 YP_406278.1 CDS SBO_P054 NC_007608.1 40099 40986 R IS629 ORF2 complement(40099..40986) Shigella boydii Sb227 3776802 YP_406279.1 CDS SBO_P055 NC_007608.1 40986 41312 R IS629 ORF1 complement(40986..41312) Shigella boydii Sb227 3776803 YP_406280.1 CDS SBO_P056 NC_007608.1 41459 41797 D IS911 ORF1 41459..41797 Shigella boydii Sb227 3776804 YP_406281.1 CDS SBO_P057 NC_007608.1 41824 42663 D IS911 ORF2 41824..42663 Shigella boydii Sb227 3776805 YP_406282.1 CDS SBO_P058 NC_007608.1 42859 43026 D hypothetical protein 42859..43026 Shigella boydii Sb227 3776806 YP_406283.1 CDS ipaH1.4 NC_007608.1 43044 44771 R secreted by the Mxi-Spa secretion machinery; invasion plasmid antigen complement(43044..44771) Shigella boydii Sb227 3776807 YP_406284.1 CDS SBO_P060 NC_007608.1 45488 45772 R IS orf, fragment complement(45488..45772) Shigella boydii Sb227 3776808 YP_406285.1 CDS insB NC_007608.1 46115 46618 R IS1 ORF2 complement(46115..46618) Shigella boydii Sb227 3776809 YP_406286.1 CDS SBO_P062 NC_007608.1 47047 47349 D IS600 ORF1 47047..47349 Shigella boydii Sb227 3776810 YP_406287.1 CDS SBO_P063 NC_007608.1 47385 47573 D IS600 ORF2 47385..47573 Shigella boydii Sb227 3776811 YP_406288.1 CDS SBO_P064 NC_007608.1 47613 48224 R IS629 ORF2 complement(47613..48224) Shigella boydii Sb227 3776812 YP_406289.1 CDS SBO_P065 NC_007608.1 48496 48822 R IS629 ORF1 complement(48496..48822) Shigella boydii Sb227 3776813 YP_406290.1 CDS ipaH4.5 NC_007608.1 48874 50598 R probably secreted by the Mxi-Spa machinery; invasion plasmid antigen complement(48874..50598) Shigella boydii Sb227 3776814 YP_406291.1 CDS ipaH7.8 NC_007608.1 51026 52723 R probably secreted by the Mxi-Spa machinery; invasion plasmid antigen complement(51026..52723) Shigella boydii Sb227 3776815 YP_406292.1 CDS SBO_P068 NC_007608.1 53359 53541 R iso-IS1 ORF2 complement(53359..53541) Shigella boydii Sb227 3776816 YP_406293.1 CDS SBO_P069 NC_007608.1 54133 55164 R IS630 orf complement(54133..55164) Shigella boydii Sb227 3776817 YP_406294.1 CDS SBO_P070 NC_007608.1 55279 55668 R ISSfl1 ORF2 complement(55279..55668) Shigella boydii Sb227 3776818 YP_406295.1 CDS SBO_P071 NC_007608.1 55674 55898 R ISSfl1 ORF1 complement(55674..55898) Shigella boydii Sb227 3776819 YP_406296.1 CDS SBO_P072 NC_007608.1 55911 56123 R ISSfl1 ORF1 complement(55911..56123) Shigella boydii Sb227 3776820 YP_406297.1 CDS SBO_P073 NC_007608.1 56300 56566 R IS1294 transposase complement(56300..56566) Shigella boydii Sb227 3776821 YP_406298.1 CDS SBO_P074 NC_007608.1 56604 57950 R IS4 orf complement(56604..57950) Shigella boydii Sb227 3776822 YP_406299.1 CDS SBO_P075 NC_007608.1 58014 58946 R IS1294 transposase complement(58014..58946) Shigella boydii Sb227 3776823 YP_406300.1 CDS ospD3 NC_007608.1 59602 61299 R SenA; probably secreted by the Mxi-Spa secretion machinery; OspD3 complement(59602..61299) Shigella boydii Sb227 3776824 YP_406301.1 CDS ospC1 NC_007608.1 61627 63039 R secreted by the Mxi-Spa secretion machinery, function unknown; OspC1 complement(61627..63039) Shigella boydii Sb227 3776825 YP_406302.1 CDS SBO_P078 NC_007608.1 63495 63794 R hypothetical protein complement(63495..63794) Shigella boydii Sb227 3776826 YP_406303.1 CDS SBO_P079 NC_007608.1 64200 64373 D IS1294 transposase 64200..64373 Shigella boydii Sb227 3776827 YP_406304.1 CDS tieB NC_007608.1 64746 65885 R TieB complement(64746..65885) Shigella boydii Sb227 3776829 YP_406305.1 CDS SBO_P080 NC_007608.1 65860 66081 D hypothetical protein 65860..66081 Shigella boydii Sb227 3776828 YP_406306.1 CDS cjrC NC_007608.1 65990 68251 R colicin Js sensitive receptor protein complement(65990..68251) Shigella boydii Sb227 3776830 YP_406307.1 CDS cjrB NC_007608.1 68420 69196 R TonB-like colicin Js sensitive putative membrane protein complement(68420..69196) Shigella boydii Sb227 3776831 YP_406308.1 CDS cjrA NC_007608.1 69204 70055 R iron-regulated protein complement(69204..70055) Shigella boydii Sb227 3776832 YP_406309.1 CDS SBO_P085 NC_007608.1 70356 70574 D IS1294 transposase 70356..70574 Shigella boydii Sb227 3776833 YP_406310.1 CDS SBO_P086 NC_007608.1 70638 71984 D IS4 orf 70638..71984 Shigella boydii Sb227 3776834 YP_406311.1 CDS SBO_P087 NC_007608.1 72022 72288 D IS1294 transposase 72022..72288 Shigella boydii Sb227 3776835 YP_406312.1 CDS SBO_P089 NC_007608.1 72669 73064 R hypothetical protein complement(72669..73064) Shigella boydii Sb227 3776837 YP_406313.1 CDS SBO_P088 NC_007608.1 73026 73448 D IS91 ORF2 73026..73448 Shigella boydii Sb227 3776836 YP_406314.1 CDS SBO_P090 NC_007608.1 73562 74635 D IS91 orf 73562..74635 Shigella boydii Sb227 3776838 YP_406315.1 CDS SBO_P091 NC_007608.1 75172 75459 R bacteriophage protein complement(75172..75459) Shigella boydii Sb227 3776839 YP_406316.1 CDS SBO_P092 NC_007608.1 75459 75770 R bacteriophage protein complement(75459..75770) Shigella boydii Sb227 3776766 YP_406317.1 CDS SBO_P093 NC_007608.1 76235 77431 D ISSfl2 ORF 76235..77431 Shigella boydii Sb227 3776691 YP_406318.1 CDS insB NC_007608.1 77858 78361 D IS1 ORF2 77858..78361 Shigella boydii Sb227 3776692 YP_001449234.1 CDS ospE2 NC_007608.1 78579 78845 R secreted by the Mxi-Spa secretion machinery; OspE2 complement(78579..78845) Shigella boydii Sb227 5563327 YP_406319.1 CDS SBO_P095 NC_007608.1 79027 79314 R IS2 ORF2 complement(79027..79314) Shigella boydii Sb227 3776693 YP_406320.1 CDS SBO_P096 NC_007608.1 79748 80875 R transposase complement(79748..80875) Shigella boydii Sb227 3776694 YP_406321.1 CDS SBO_P097 NC_007608.1 80939 81181 D hypothetical protein 80939..81181 Shigella boydii Sb227 3776695 YP_406322.2 CDS SBO_P098 NC_007608.1 81536 82441 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(81536..82441) Shigella boydii Sb227 3776696 YP_406323.1 CDS SBO_P099 NC_007608.1 82399 82764 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(82399..82764) Shigella boydii Sb227 3776697 YP_406324.1 CDS SBO_P100 NC_007608.1 82963 83181 R IS orf, fragment complement(82963..83181) Shigella boydii Sb227 3776698 YP_406325.1 CDS SBO_P101 NC_007608.1 83236 83874 R hypothetical protein complement(83236..83874) Shigella boydii Sb227 3776699 YP_406326.1 CDS SBO_P102 NC_007608.1 84072 84398 D IS629 ORF1 84072..84398 Shigella boydii Sb227 3776700 YP_406327.1 CDS SBO_P103 NC_007608.1 84670 85281 D IS629 ORF2 84670..85281 Shigella boydii Sb227 3776701 YP_406328.1 CDS ospC3 NC_007608.1 85650 87104 D probably secreted by the Mxi-Spa secretion machinery; OspC3 85650..87104 Shigella boydii Sb227 3776702 YP_406329.1 CDS SBO_P105 NC_007608.1 87442 87744 D IS600 ORF1 87442..87744 Shigella boydii Sb227 3776703 YP_406330.1 CDS SBO_P106 NC_007608.1 87885 88598 D IS600 ORF2 87885..88598 Shigella boydii Sb227 3776704 YP_406331.1 CDS SBO_P107 NC_007608.1 88998 89885 R IS629 ORF2 complement(88998..89885) Shigella boydii Sb227 3776705 YP_406332.1 CDS SBO_P108 NC_007608.1 89885 90211 R IS629 ORF1 complement(89885..90211) Shigella boydii Sb227 3776706 YP_406333.1 CDS SBO_P109 NC_007608.1 90287 90913 D IS911 ORF2 90287..90913 Shigella boydii Sb227 3776707 YP_406334.1 CDS SBO_P110 NC_007608.1 91079 91426 D hypothetical protein 91079..91426 Shigella boydii Sb227 3776708 YP_406335.1 CDS ccdA NC_007608.1 91598 91816 D plasmid maintenance protein CcdA 91598..91816 Shigella boydii Sb227 3776709 YP_406336.2 CDS ccdB NC_007608.1 91818 92123 D controlled cell death protein; post-segregation toxin; toxin addiction system; plasmid maintenance protein CcdB 91818..92123 Shigella boydii Sb227 3776710 YP_406337.1 CDS ipaH9.8 NC_007608.1 92516 94153 D secreted by the Mxi-Spa secretion machinery; invasion plasmid antigen 92516..94153 Shigella boydii Sb227 3776711 YP_406338.1 CDS SBO_P114 NC_007608.1 94361 94630 D hypothetical protein 94361..94630 Shigella boydii Sb227 3776712 YP_406339.1 CDS insB NC_007608.1 94863 95366 R IS1 ORF2 complement(94863..95366) Shigella boydii Sb227 3776713 YP_406340.1 CDS SBO_P116 NC_007608.1 96247 97089 D hypothetical protein 96247..97089 Shigella boydii Sb227 3776714 YP_406341.1 CDS SBO_P117 NC_007608.1 97092 98180 D hypothetical protein 97092..98180 Shigella boydii Sb227 3776715 YP_406342.1 CDS virK NC_007608.1 98185 99135 D required for proper localization of IcsA (VirG) at the surface of bacteria; VirK protein 98185..99135 Shigella boydii Sb227 3776716 YP_406343.1 CDS msbB2 NC_007608.1 99200 100144 D probable lipid A transacetylase; Transfers myristate or laurate, activated on ACP, to the lipid IVA moiety of (KDO)2-(lauroyl)-lipid IVA; lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase 99200..100144 Shigella boydii Sb227 3776717 YP_406344.1 CDS SBO_P120 NC_007608.1 100298 100906 R IS630 orf complement(100298..100906) Shigella boydii Sb227 3776718 YP_406345.1 CDS insB NC_007608.1 100985 101488 R IS1 ORF2 complement(100985..101488) Shigella boydii Sb227 3776719 YP_406346.1 CDS traD NC_007608.1 101798 102211 D hypothetical protein 101798..102211 Shigella boydii Sb227 3776720 YP_406347.1 CDS trbH NC_007608.1 102211 102930 D hypothetical protein 102211..102930 Shigella boydii Sb227 3776721 YP_406348.1 CDS mvpT NC_007608.1 102618 102845 R plasmid maintenance protein complement(102618..102845) Shigella boydii Sb227 3776722 YP_406349.1 CDS SBO_P125 NC_007608.1 102927 103346 D oriT nicking and unwinding protein, fragment 102927..103346 Shigella boydii Sb227 3776723 YP_406350.1 CDS SBO_P126 NC_007608.1 103306 108204 D cleaves origin of transfer and unwinds; oriT relaxase; conjugal transfer nickase/helicase TraI 103306..108204 Shigella boydii Sb227 3776724 YP_406351.1 CDS traX NC_007608.1 108224 108970 D conjugal transfer pilus acetylation protein TraX 108224..108970 Shigella boydii Sb227 3776725 YP_406352.1 CDS finO NC_007608.1 109025 109585 D putative fertility inhibition protein; conjugal transfer fertility inhibition protein FinO 109025..109585 Shigella boydii Sb227 3776726 YP_406353.1 CDS yigA NC_007608.1 109716 109928 D hypothetical protein 109716..109928 Shigella boydii Sb227 3776727 YP_406354.1 CDS SBO_P130 NC_007608.1 110172 110633 D hypothetical protein 110172..110633 Shigella boydii Sb227 3776728 YP_406355.1 CDS hmo NC_007608.1 110679 110888 D regulator 110679..110888 Shigella boydii Sb227 3776729 YP_406356.1 CDS SBO_P132 NC_007608.1 110927 111517 D hypothetical protein 110927..111517 Shigella boydii Sb227 3776730 YP_406357.1 CDS repB NC_007608.1 111757 112017 D replication protein 111757..112017 Shigella boydii Sb227 3776731 YP_406358.1 CDS repA NC_007608.1 112308 113165 D RepA; replication protein 112308..113165 Shigella boydii Sb227 3776732 YP_406359.1 CDS SBO_P135 NC_007608.1 114273 114497 D hypothetical protein 114273..114497 Shigella boydii Sb227 3776733 YP_406360.1 CDS SBO_P136 NC_007608.1 114653 115852 R IS1294 transposase complement(114653..115852) Shigella boydii Sb227 3776734 YP_406361.1 CDS SBO_P137 NC_007608.1 116065 116412 R IS629 ORF1 complement(116065..116412) Shigella boydii Sb227 3776735 YP_406362.1 CDS ospC2 NC_007608.1 116804 118258 D probably secreted by the Mxi-Spa secretion machinery; OspC2 116804..118258 Shigella boydii Sb227 3776736 YP_406363.1 CDS SBO_P139 NC_007608.1 118397 119605 R IS1294 transposase complement(118397..119605) Shigella boydii Sb227 3776737 YP_406364.1 CDS SBO_P140 NC_007608.1 120130 120432 D hypothetical protein 120130..120432 Shigella boydii Sb227 3776738 YP_406365.1 CDS SBO_P141 NC_007608.1 120423 120905 D hypothetical protein 120423..120905 Shigella boydii Sb227 3776739 YP_406366.1 CDS SBO_P142 NC_007608.1 120973 121275 D IS600 ORF1 120973..121275 Shigella boydii Sb227 3776740 YP_406367.1 CDS SBO_P143 NC_007608.1 121311 121499 D IS600 ORF2 121311..121499 Shigella boydii Sb227 3776741 YP_406368.1 CDS SBO_P144 NC_007608.1 121539 121904 R IS629 ORF2 complement(121539..121904) Shigella boydii Sb227 3776742 YP_406369.1 CDS SBO_P145 NC_007608.1 121915 122253 D IS911 ORF1 121915..122253 Shigella boydii Sb227 3776743 YP_406370.1 CDS SBO_P146 NC_007608.1 122280 123119 D IS911 ORF2 122280..123119 Shigella boydii Sb227 3776744 YP_406371.1 CDS SBO_P147 NC_007608.1 123143 123835 R hypothetical protein complement(123143..123835) Shigella boydii Sb227 3776745 YP_406372.1 CDS SBO_P148 NC_007608.1 123891 124043 D IS3 ORF2 123891..124043 Shigella boydii Sb227 3776746 YP_406373.1 CDS icsP/sopA NC_007608.1 125379 126326 D outermembrane protease of the OmpP family, involved in cleavage of surface exposed IcsA; outer membrane protease; involved in virulence in many organisms; OmpT; IcsP; SopA; Pla; PgtE; omptin; in Escherichia coli OmpT can degrade antimicrobial peptides; in Yersinia Pla activates plasminogen during infection; in Shigella flexneria SopA cleaves the autotransporter IcsA; outer membrane protease 125379..126326 Shigella boydii Sb227 3776747 YP_406566.1 CDS thrA NC_007613.1 335 2797 D homoserine dehydrogenase I; multifunctional homotetrameric enzyme that catalyzes the phosphorylation of aspartate to form aspartyl-4-phosphate as well as conversion of aspartate semialdehyde to homoserine; functions in a number of amino acid biosynthetic pathways; bifunctional aspartokinase I/homoserine dehydrogenase I 335..2797 Shigella boydii Sb227 3779602 YP_406567.1 CDS thrB NC_007613.1 2799 3731 D catalyzes the formation of O-phospho-L-homoserine from L-homoserine in threonine biosynthesis from asparate; homoserine kinase 2799..3731 Shigella boydii Sb227 3779603 YP_406568.1 CDS thrC NC_007613.1 3732 5018 D catalyzes the formation of L-threonine from O-phospho-L-homoserine; threonine synthase 3732..5018 Shigella boydii Sb227 3779604 YP_406569.1 CDS SBO_0004 NC_007613.1 5232 5528 D hypothetical protein 5232..5528 Shigella boydii Sb227 3779605 YP_406570.1 CDS yaaA NC_007613.1 5681 6457 R Code: S; COG: COG3022; hypothetical protein complement(5681..6457) Shigella boydii Sb227 3779606 YP_406571.1 CDS SBO_0006 NC_007613.1 6639 6869 R IS1 encoded protein complement(6639..6869) Shigella boydii Sb227 3779607 YP_406572.1 CDS insB NC_007613.1 6962 7465 D Code: L; COG: COG1662; IS1 ORF2 6962..7465 Shigella boydii Sb227 3779608 YP_406573.1 CDS talB NC_007613.1 9013 9966 D Code: G; COG: COG0176; transaldolase B 9013..9966 Shigella boydii Sb227 3779610 YP_406574.1 CDS mogA NC_007613.1 10081 10668 D required for the efficient incorporation of molybdate into molybdoproteins; forms a trimer; related to eukaryotic protein gephyrin; functions during molybdenum cofactor biosynthesis; molybdenum cofactor biosynthesis protein MogA 10081..10668 Shigella boydii Sb227 3779611 YP_406575.1 CDS yaaH NC_007613.1 10703 11269 R Code: S; COG: COG1584; hypothetical protein complement(10703..11269) Shigella boydii Sb227 3779612 YP_406576.1 CDS SBO_0012 NC_007613.1 11418 12131 R Code: S; COG: COG4735; hypothetical protein complement(11418..12131) Shigella boydii Sb227 3779613 YP_406577.1 CDS insB NC_007613.1 12356 12859 R Code: L; COG: COG1662; IS1 ORF2 complement(12356..12859) Shigella boydii Sb227 3779821 YP_406578.1 CDS SBO_0014 NC_007613.1 12934 13155 D IS1 encoded protein 12934..13155 Shigella boydii Sb227 3779822 YP_406579.1 CDS dnaK NC_007613.1 13301 15217 D DNA biosynthesis; autoregulated heat shock proteins; heat shock protein 70; assists in folding of nascent polypeptide chains; refolding of misfolded proteins; utilizes ATPase activity to help fold; co-chaperones are DnaJ and GrpE; multiple copies in some bacteria; molecular chaperone DnaK 13301..15217 Shigella boydii Sb227 3779823 YP_406580.1 CDS dnaJ NC_007613.1 15306 16436 D heat shock protein; chaperone Hsp40; co-chaperone with DnaK; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, dnaK-independent fashion; chaperone protein DnaJ 15306..16436 Shigella boydii Sb227 3779824 YP_406581.1 CDS gef NC_007613.1 16540 16749 R interferes with membrane function when in excess; Gef protein complement(16540..16749) Shigella boydii Sb227 3779825 YP_406582.1 CDS nhaA NC_007613.1 17278 18444 D exports sodium by using the electrochemical proton gradient to allow protons into the cell; functions in adaptation to high salinity and alkaline pH; activity increases at higher pH; downregulated at acidic pH; pH-dependent sodium/proton antiporter 17278..18444 Shigella boydii Sb227 3779826 YP_406583.1 CDS nhaR NC_007613.1 18504 19409 D Na+/H+ antiporter regulatory protein; activates the genes nhaA and osmC; transcriptional activator NhaR 18504..19409 Shigella boydii Sb227 3779827 YP_406584.1 CDS SBO_0020 NC_007613.1 19907 20077 R IS1 encoded protein complement(19907..20077) Shigella boydii Sb227 3779828 YP_406585.1 CDS insB NC_007613.1 20170 20673 D Code: L; COG: COG1662; IS1 ORF2 20170..20673 Shigella boydii Sb227 3779829 YP_406586.1 CDS rpsT NC_007613.1 20907 21170 R binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase; 30S ribosomal protein S20 complement(20907..21170) Shigella boydii Sb227 3779830 YP_406587.1 CDS SBO_0023 NC_007613.1 21273 21491 D hypothetical protein 21273..21491 Shigella boydii Sb227 3779831 YP_406588.1 CDS ribF NC_007613.1 21499 22440 D catalyzes the formation of FMN from riboflavin and the formation of FAD from FMN; in Bacillus the ribC gene has both flavokinase and FAD synthetase activities; bifunctional riboflavin kinase/FMN adenylyltransferase 21499..22440 Shigella boydii Sb227 3779832 YP_406589.1 CDS ileS NC_007613.1 22483 25299 D IleRS; catalyzes the formation of isoleucyl-tRNA(Ile) from isoleucine and tRNA(Ile); since isoleucine and other amino acids such as valine are similar, there are additional editing function in this enzyme; one is involved in hydrolysis of activated valine-AMP and the other is involved in deacylation of mischarged Val-tRNA(Ile); there are two active sites, one for aminoacylation and one for editing; class-I aminoacyl-tRNA synthetase family type 1 subfamily; some organisms carry two different copies of this enzyme; isoleucyl-tRNA synthetase 22483..25299 Shigella boydii Sb227 3779833 YP_406590.1 CDS lspA NC_007613.1 25299 25793 D SPase II; lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis; lipoprotein signal peptidase 25299..25793 Shigella boydii Sb227 3779834 YP_406591.1 CDS slpA NC_007613.1 25862 26311 D a rotamase; Code: O; COG: COG1047; FKBP-type peptidyl-prolyl cis-trans isomerase 25862..26311 Shigella boydii Sb227 3779835 YP_406592.1 CDS ispH NC_007613.1 26313 27263 D control of stringent response; involved in penicillin tolerance; catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate into isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP); functions in the nonmevalonate isoprenoid biosynthesis pathway; 4-hydroxy-3-methylbut-2-enyl diphosphate reductase 26313..27263 Shigella boydii Sb227 3779836 YP_406593.1 CDS yaaF NC_007613.1 27329 28243 D catalyzes the hydrolysis of both purine and pyrimidine ribonucleosides; ribonucleoside hydrolase RihC 27329..28243 Shigella boydii Sb227 3779837 YP_406594.1 CDS dapB NC_007613.1 28410 29231 D catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis; dihydrodipicolinate reductase 28410..29231 Shigella boydii Sb227 3779838 YP_406595.1 CDS carA NC_007613.1 29686 30834 D catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers; carbamoyl phosphate synthase small subunit 29686..30834 Shigella boydii Sb227 3779839 YP_406596.1 CDS carB NC_007613.1 30852 34073 D four CarB-CarA dimers form the carbamoyl phosphate synthetase holoenzyme that catalyzes the production of carbamoyl phosphate; CarB is responsible for the amidotransferase activity; carbamoyl phosphate synthase large subunit 30852..34073 Shigella boydii Sb227 3779915 YP_406597.1 CDS insB NC_007613.1 34194 34697 R Code: L; COG: COG1662; IS1 ORF2 complement(34194..34697) Shigella boydii Sb227 3779916 YP_406598.2 CDS yaaU NC_007613.1 34811 36226 D Code: GEPR; COG: COG0477; transporter 34811..36226 Shigella boydii Sb227 3779917 YP_406599.1 CDS yabF NC_007613.1 36308 36838 D Required for full activity of KefC, a potassium-proton antiporter; glutathione-regulated potassium-efflux system ancillary protein KefF 36308..36838 Shigella boydii Sb227 3779918 YP_406600.1 CDS kefC NC_007613.1 36831 38693 D glutathione-regulated; transport system that facilitates potassium-efflux; glutathione-regulated potassium-efflux system protein KefC 36831..38693 Shigella boydii Sb227 3779919 YP_406601.1 CDS folA NC_007613.1 38885 39364 D trimethoprim resistance; catalyzes the reduction of dihydrofolate to tetrahydrofolate; dihydrofolate reductase 38885..39364 Shigella boydii Sb227 3779920 YP_406602.1 CDS apaH NC_007613.1 39442 40284 R hydrolyzes P(1),P(4)-bis(5'-adenosyl) tetraphosphate to form 2 ADP; diadenosine tetraphosphatase complement(39442..40284) Shigella boydii Sb227 3779921 YP_406603.1 CDS apaG NC_007613.1 40291 40668 R protein associated with Co2+ and Mg2+ efflux; ApaG protein complement(40291..40668) Shigella boydii Sb227 3779922 YP_406604.1 CDS ksgA NC_007613.1 40671 41492 R catalyzes the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases A1518 and A1519 in 16S rRNA; mutations in ksgA causes resistance to the translation initiation inhibitor kasugamycin; dimethyladenosine transferase complement(40671..41492) Shigella boydii Sb227 3779923 YP_406605.1 CDS pdxA NC_007613.1 41489 42478 R catalyzes oxidation of 4-(phosphohydroxy)-L-threonine into 2-amino-3-oxo-4-(phosphohydroxy)butyric acid which decarboxylates to form 1-amino-3-(phosphohydroxy)propan-2-one (3-amino-2-oxopropyl phosphate); 4-hydroxythreonine-4-phosphate dehydrogenase complement(41489..42478) Shigella boydii Sb227 3779924 YP_406606.1 CDS surA NC_007613.1 42478 43764 R Chaperone involved in the folding of extracytoplasmic proteins, especially OmpA, OmpF and LamB; peptidyl-prolyl cis-trans isomerase SurA complement(42478..43764) Shigella boydii Sb227 3779925 YP_406607.1 CDS imp NC_007613.1 43817 46171 R determines N-hexane tolerance and is involved in outer membrane permeability; organic solvent tolerance protein complement(43817..46171) Shigella boydii Sb227 3779926 YP_406608.1 CDS djlA NC_007613.1 46426 47241 D functions as a co-chaperone with DnaK; involved in regulation of colanic acid capsule; inner membrane protein; dimerized via transmembrane domain; J-like domain is cytoplasmic and can functionally substitute for DnaJ; stimulates synthesis of colanic acid mucoid capsule through the RcsB/C signal transduction system; Dna-J like membrane chaperone protein 46426..47241 Shigella boydii Sb227 3779927 YP_406609.1 CDS yabO NC_007613.1 47358 48017 R catalyzes the synthesis of pseudouridine from uracil-746 in 23S ribosomal RNA and from uracil-32 in the anticodon stem and loop of transfer RNAs; 23S rRNA/tRNA pseudouridine synthase A complement(47358..48017) Shigella boydii Sb227 3779928 YP_406610.1 CDS hepA NC_007613.1 48029 50935 R transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA; ATP-dependent helicase HepA complement(48029..50935) Shigella boydii Sb227 3779929 YP_406611.1 CDS polB NC_007613.1 51099 53450 R Has polymerase, DNA-binding and 3'-5' exonuclease activities. In Aeropyrum pernix this protein is sensitive to aphidicolin and stable at 95#C; DNA polymerase II complement(51099..53450) Shigella boydii Sb227 3779930 YP_406612.1 CDS araD NC_007613.1 53525 54220 R catalyzes the isomerization of L-ribulose 5-phosphate to D-xylulose 5-phosphate in the anaerobic catabolism of L-ascorbate; links the arabinose metabolic pathway to the pentose phosphate pathway and allows the bacteria to use arabinose as an energy source; L-ribulose-5-phosphate 4-epimerase complement(53525..54220) Shigella boydii Sb227 3779931 YP_406613.1 CDS araA NC_007613.1 54420 55922 R catalyzes the formation of L-ribulose from L-arabinose in L-arabinose catabolism; L-arabinose isomerase complement(54420..55922) Shigella boydii Sb227 3779932 YP_406614.1 CDS araB NC_007613.1 55933 57633 R catalyzes the phosphorylation of ribulose to ribulose 5-phosphate; ribulokinase complement(55933..57633) Shigella boydii Sb227 3779933 YP_406615.1 CDS araC NC_007613.1 57972 58850 D transcriptional regulator for ara operon; positive and negative regulator; regulates the araBAD and araFGH operons and other genes involved in the transport and catabolism of L-arabinose; DNA-binding transcriptional regulator AraC 57972..58850 Shigella boydii Sb227 3779934 YP_406616.1 CDS yabI NC_007613.1 58936 59700 D Code: S; COG: COG0586; hypothetical protein 58936..59700 Shigella boydii Sb227 3780032 YP_406617.1 CDS thiQ NC_007613.1 59813 60511 R with TbpA and ThiP is part of the thiamine and TPP transport system; thiamine transporter ATP-binding subunit complement(59813..60511) Shigella boydii Sb227 3780033 YP_406618.1 CDS thiP NC_007613.1 60495 62105 R permease; with TbpA and ThiQ functions in transport of thiamine and thiamine pyrophosphate into the cell; repressed in presence of exogenous thiamine; thiamine transporter membrane protein complement(60495..62105) Shigella boydii Sb227 3780034 YP_406619.1 CDS tbpA NC_007613.1 62081 63064 R part of the thiamine and TPP transport system tbpA-thiPQ; thiamine transporter substrate binding subunit complement(62081..63064) Shigella boydii Sb227 3780035 YP_406620.1 CDS yabN NC_007613.1 63228 64883 R activates sgrS under glucose-phosphate stress conditions; transcriptional regulator SgrR complement(63228..64883) Shigella boydii Sb227 3780036 YP_406621.1 CDS yabM NC_007613.1 65205 66287 D Code: GEPR; COG: COG0477; transporter 65205..66287 Shigella boydii Sb227 3780037 YP_406622.1 CDS leuD NC_007613.1 66336 66941 R catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis; forms a heterodimer of LeuC/D; isopropylmalate isomerase small subunit complement(66336..66941) Shigella boydii Sb227 3780038 YP_406623.1 CDS leuC NC_007613.1 66952 68352 R dehydratase component, catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; isopropylmalate isomerase large subunit complement(66952..68352) Shigella boydii Sb227 3780039 YP_406624.2 CDS leuB NC_007613.1 68355 69446 R catalyzes the oxidation of 3-isopropylmalate to 3-carboxy-4-methyl-2-oxopentanoate in leucine biosynthesis; 3-isopropylmalate dehydrogenase complement(68355..69446) Shigella boydii Sb227 3780040 YP_406625.1 CDS leuA NC_007613.1 69446 71017 R catalyzes the formation of 2-isopropylmalate from acetyl-CoA and 2-oxoisovalerate in leucine biosynthesis; 2-isopropylmalate synthase complement(69446..71017) Shigella boydii Sb227 3780041 YP_406626.1 CDS leuL NC_007613.1 71110 71196 R involved in attenuation control of the leuABCD operon in leucine biosynthesis; leu operon leader peptide complement(71110..71196) Shigella boydii Sb227 3780042 YP_406627.1 CDS insB NC_007613.1 71769 72272 D Code: L; COG: COG1662; IS1 ORF2 71769..72272 Shigella boydii Sb227 3780043 YP_406628.1 CDS ilvI NC_007613.1 73633 75357 D catalyzes the formation of 2-acetolactate from pyruvate, leucine sensitive; acetolactate synthase 3 catalytic subunit 73633..75357 Shigella boydii Sb227 3780045 YP_406629.1 CDS ilvH NC_007613.1 75360 75851 D with IlvI catalyzes the formation of 2-acetolactate from pyruvate, the small subunit is required for full activity and valine sensitivity; E.coli produces 3 isoenzymes of acetolactate synthase which differ in specificity to substrates, valine sensitivity and affinity for cofactors; also known as acetolactate synthase 3 small subunit; acetolactate synthase 3 regulatory subunit 75360..75851 Shigella boydii Sb227 3780046 YP_406631.1 CDS fruR NC_007613.1 76031 77035 D binds D-fructose as an inducer; involved in regulation of operons for central pathways of carbon metabolism; DNA-binding transcriptional regulator FruR 76031..77035 Shigella boydii Sb227 3780048 YP_406632.1 CDS yabB NC_007613.1 77637 78095 D MraZ; UPF0040; crystal structure shows similarity to AbrB; cell division protein MraZ 77637..78095 Shigella boydii Sb227 3780049 YP_406633.1 CDS mraW NC_007613.1 78097 79038 D Code: M; COG: COG0275; S-adenosyl-methyltransferase MraW 78097..79038 Shigella boydii Sb227 3780225 YP_406634.1 CDS ftsL NC_007613.1 79035 79400 D ingrowth of wall at septum; membrane bound cell division protein at septum containing leucine zipper motif; cell division protein FtsL 79035..79400 Shigella boydii Sb227 3780226 YP_406635.1 CDS ftsI NC_007613.1 79416 81182 D septum formation; peptidoglycan synthetase; Code: M; COG: COG0768; penicillin-binding protein 3 79416..81182 Shigella boydii Sb227 3780227 YP_406636.1 CDS murE NC_007613.1 81169 82656 D involved in cell wall formation; peptidoglycan synthesis; cytoplasmic enzyme; catalyzes the addition of meso-diaminopimelic acid to the nucleotide precursor UDP-N-aceylmuramoyl-l-alanyl-d-glutamate; UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase 81169..82656 Shigella boydii Sb227 3780228 YP_406637.1 CDS murF NC_007613.1 82653 84011 D Code: M; COG: COG0770; UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D- alanine ligase 82653..84011 Shigella boydii Sb227 3780229 YP_406638.1 CDS mraY NC_007613.1 84005 85087 D First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan; phospho-N-acetylmuramoyl-pentapeptide- transferase 84005..85087 Shigella boydii Sb227 3780230 YP_406639.1 CDS murD NC_007613.1 85090 86406 D UDP-N-acetylmuramoylalanine--D-glutamate ligase; involved in peptidoglycan biosynthesis; cytoplasmic; catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine during cell wall formation; UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase 85090..86406 Shigella boydii Sb227 3780231 YP_406640.1 CDS ftsW NC_007613.1 86406 87650 D cell division; membrane protein involved in shape determination; integral membrane protein involved in stabilizing FstZ ring during cell division; cell division protein FtsW 86406..87650 Shigella boydii Sb227 3780232 YP_406641.1 CDS murG NC_007613.1 87647 88714 D UDP-N-acetylglucosamine--N-acetylmuramyl- (pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase; involved in cell wall formation; inner membrane-associated; last step of peptidoglycan synthesis; undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase 87647..88714 Shigella boydii Sb227 3780233 YP_406642.1 CDS murC NC_007613.1 88768 90243 D L-alanine adding enzyme; Catalyzes the formation of UDP-N-acetylmuramoyl-L-alanine from UDP-N-acetylmuramate and L-alanine in peptidoglycan synthesis; UDP-N-acetylmuramate--L-alanine ligase 88768..90243 Shigella boydii Sb227 3780234 YP_406643.1 CDS ddl NC_007613.1 90236 91156 D affects cell division; D-alanine--D-alanine ligase; DdlA; DdlB; cytoplasmic; catalyzes the formation of D-alanyl-D-alanine from two D-alanines in peptidoglycan synthesis; there are two forms of this enzyme in Escherichia coli; D-alanine--D-alanine ligase 90236..91156 Shigella boydii Sb227 3780235 YP_406644.1 CDS ftsQ NC_007613.1 91158 91988 D cell division protein; ingrowth of wall at septum; involved in septum formation; cell division protein FtsQ 91158..91988 Shigella boydii Sb227 3780236 YP_406645.1 CDS ftsA NC_007613.1 91985 93247 D septation process, complexes with FtsZ, associated with junctions of inner and outer membranes; ATP-binding involved in recruitment of FtsK to Z ring; essential cell division protein; colocalizes with FtsZ through direct interaction to the septal ring structure; structurally similar to eukaryotic actin; binds directly to the cell membrane; cell division protein FtsA 91985..93247 Shigella boydii Sb227 3780237 YP_406646.1 CDS SBO_0084 NC_007613.1 93269 94567 R hypothetical protein complement(93269..94567) Shigella boydii Sb227 3780239 YP_406647.1 CDS lpxC NC_007613.1 94560 95477 D lipid A biosynthesis; zinc-dependent; catalyzes the deacetylation of UDP-(3-O-acyl)-N-acetylglucosamine to UDP-3-O-(3-hydroxytetradecanoyl)-glucosamine in the second step of lipid A biosynthesis; UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase 94560..95477 Shigella boydii Sb227 3780238 YP_406648.2 CDS yacA NC_007613.1 95708 96220 D secM translational pause allows for the initiation of secA translation; SecA regulator SecM 95708..96220 Shigella boydii Sb227 3780240 YP_406649.1 CDS secA NC_007613.1 96282 98987 D secretion protein; functions in protein export; can interact with acidic membrane phospholipids and the SecYEG protein complex; binds to preproteins; binds to ATP and undergoes a conformational change to promote membrane insertion of SecA/bound preprotein; ATP hydrolysis appears to drive release of the preprotein from SecA and deinsertion of SecA from the membrane; additional proteins SecD/F/YajC aid SecA recycling; exists in an equilibrium between monomers and dimers; may possibly form higher order oligomers; proteins in this cluster correspond SecA1; SecA2 is not essential and seems to play a role in secretion of a subset of proteins; preprotein translocase subunit SecA 96282..98987 Shigella boydii Sb227 3780241 YP_406650.1 CDS mutT NC_007613.1 99047 99436 D prefers dGTP, causes AT-GC transversions; Code: LR; COG: COG0494; nucleoside triphosphate pyrophosphohydrolase 99047..99436 Shigella boydii Sb227 3780242 YP_406651.1 CDS SBO_0088 NC_007613.1 99458 99592 R hypothetical protein complement(99458..99592) Shigella boydii Sb227 3780243 YP_406652.1 CDS yacG NC_007613.1 99543 99740 R Code: S; COG: COG3024; zinc-binding protein complement(99543..99740) Shigella boydii Sb227 3780244 YP_406653.1 CDS yacF NC_007613.1 99750 100493 R Code: S; COG: COG4582; hypothetical protein complement(99750..100493) Shigella boydii Sb227 3779347 YP_406654.1 CDS coaE NC_007613.1 100493 101113 R catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis; dephospho-CoA kinase complement(100493..101113) Shigella boydii Sb227 3779348 YP_406655.1 CDS guaC NC_007613.1 101338 102381 D catalyzes the NADPH-dependent deamination of GMP to inosine monophosphate; guanosine 5'-monophosphate oxidoreductase 101338..102381 Shigella boydii Sb227 3779349 YP_406656.1 CDS SBO_0093 NC_007613.1 102301 102408 R hypothetical protein complement(102301..102408) Shigella boydii Sb227 3779350 YP_406657.1 CDS hofC NC_007613.1 102416 103618 R integral membrane protein involved in biogenesis of fimbriae, protein transport, DNA uptake; Code: NU; COG: COG1459; type IV pilin biogenesis protein complement(102416..103618) Shigella boydii Sb227 3779351 YP_406658.1 CDS insB NC_007613.1 105502 106005 D Code: L; COG: COG1662; IS1 ORF2 105502..106005 Shigella boydii Sb227 3779353 YP_406659.1 CDS nadC NC_007613.1 106412 107305 R catalyzes the formation of pyridine-2,3-dicarboxylate and 5-phospho-alpha-D-ribose 1-diphosphate from nictinate D-ribonucleotide; quinolinate phosphoribosyltransferase complement(106412..107305) Shigella boydii Sb227 3779355 YP_406660.1 CDS ampD NC_007613.1 107393 107944 D regulates ampC; Code: V; COG: COG3023; N-acetyl-anhydromuranmyl-L-alanine amidase 107393..107944 Shigella boydii Sb227 3779356 YP_406661.1 CDS ampE NC_007613.1 107941 108795 D regulates ampC; involved in regulation of beta-lactamase; signaling protein; regulatory protein AmpE 107941..108795 Shigella boydii Sb227 3779357 YP_406662.1 CDS aroP NC_007613.1 108838 110211 R Code: E; COG: COG1113; aromatic amino acid transporter complement(108838..110211) Shigella boydii Sb227 3779358 YP_406663.1 CDS pdhR NC_007613.1 110752 111516 D transcriptional regulator for pyruvate dehydrogenase complex; activates lctPRD operon; autoregulates itself through repression of pdhR-aceEF-lpdA operon; regulates pyruvate dehydrogenase complex; transcriptional regulator PdhR 110752..111516 Shigella boydii Sb227 3779359 YP_406664.1 CDS aceE NC_007613.1 111677 114340 D E1 component; part of pyruvate dehydrogenase; forms a complex with DlaT and LpdC; pyruvate dehydrogenase subunit E1 111677..114340 Shigella boydii Sb227 3779360 YP_406665.1 CDS aceF NC_007613.1 114355 115944 D Code: C; COG: COG0508; dihydrolipoamide acetyltransferase 114355..115944 Shigella boydii Sb227 3779361 YP_406666.1 CDS lpdA NC_007613.1 116269 117693 D component of 2-oxodehydrogenase and pyruvate complexes; L-protein of glycine cleavage complex; E3 component of pyruvate and 2-oxoglutarate dehydrogenase complex; catalyzes the oxidation of dihydrolipoamide to lipoamide; dihydrolipoamide dehydrogenase 116269..117693 Shigella boydii Sb227 3779362 YP_406667.1 CDS yacH NC_007613.1 117764 119587 R hypothetical protein complement(117764..119587) Shigella boydii Sb227 3779363 YP_406668.1 CDS acnB NC_007613.1 119971 122568 D catalyzes the conversion of citrate to isocitrate and the conversion of 2-methylaconitate to 2-methylisocitrate; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase 119971..122568 Shigella boydii Sb227 3779364 YP_406669.2 CDS yacL NC_007613.1 122743 123105 D Code: S; COG: COG3112; hypothetical protein 122743..123105 Shigella boydii Sb227 3779365 YP_406670.1 CDS speD NC_007613.1 123142 123936 R S-adenosylmethionine provides the aminopropyl moiety required for spermidine biosynthesis from putrescine; S-adenosylmethionine decarboxylase complement(123142..123936) Shigella boydii Sb227 3779462 YP_406671.1 CDS speE NC_007613.1 123952 124818 R putrescine aminopropyltransferase; catalyzes the formation of spermidine from putrescine and S-adenosylmethioninamine; spermidine synthase complement(123952..124818) Shigella boydii Sb227 3779463 YP_406672.1 CDS yacC NC_007613.1 124924 125394 R hypothetical protein complement(124924..125394) Shigella boydii Sb227 3779464 YP_406673.1 CDS yacK NC_007613.1 125437 126987 D laccase; copper-stimulated phenoloxidase and ferroxidase which may be involved in copper detoxification; multicopper oxidase 125437..126987 Shigella boydii Sb227 3779465 YP_406674.1 CDS gcd NC_007613.1 127034 129424 R Code: G; COG: COG4993; glucose dehydrogenase complement(127034..129424) Shigella boydii Sb227 3779466 YP_406675.2 CDS hpt NC_007613.1 129630 130166 D Code: F; COG: COG0634; hypoxanthine phosphoribosyltransferase 129630..130166 Shigella boydii Sb227 3779467 YP_406676.1 CDS yadF NC_007613.1 130207 130869 R catalyzes the interconversion of bicarbonate and carbon dioxide; carbonic anhydrase complement(130207..130869) Shigella boydii Sb227 3779468 YP_406677.1 CDS yadG NC_007613.1 130978 131904 D Code: V; COG: COG1131; ABC transporter ATP-binding protein 130978..131904 Shigella boydii Sb227 3779469 YP_406678.1 CDS yadH NC_007613.1 131901 132671 D Code: V; COG: COG0842; hypothetical protein 131901..132671 Shigella boydii Sb227 3779470 YP_406679.1 CDS yadI NC_007613.1 132776 133216 D Code: G; COG: COG2893; PTS transporter subunit IIB 132776..133216 Shigella boydii Sb227 3779471 YP_406680.1 CDS panD NC_007613.1 134515 134895 R Converts L-aspartate to beta-alanine and provides the major route of beta-alanine production in bacteria. Beta-alanine is essential for the biosynthesis of pantothenate (vitamin B5); aspartate alpha-decarboxylase complement(134515..134895) Shigella boydii Sb227 3779473 YP_406681.1 CDS yadD NC_007613.1 135169 136065 D Code: S; COG: COG5464; hypothetical protein 135169..136065 Shigella boydii Sb227 3779474 YP_406682.1 CDS panC NC_007613.1 136357 137208 R catalyzes the formation of (R)-pantothenate from pantoate and beta-alanine; pantoate--beta-alanine ligase complement(136357..137208) Shigella boydii Sb227 3779475 YP_406683.1 CDS panB NC_007613.1 137220 138014 R catalyzes the formation of tetrahydrofolate and 2-dehydropantoate from 5,10-methylenetetrahydrofolate and 3-methyl-2-oxobutanoate; 3-methyl-2-oxobutanoate hydroxymethyltransferase complement(137220..138014) Shigella boydii Sb227 3779476 YP_406684.1 CDS SBO_0124 NC_007613.1 138221 139060 R Code: L; COG: COG2801; IS911 ORF2 complement(138221..139060) Shigella boydii Sb227 3779477 YP_406685.1 CDS ecpD NC_007613.1 140393 141133 R similar to PapD; Code: NU; COG: COG3121; chaperone protein EcpD complement(140393..141133) Shigella boydii Sb227 3779479 YP_406686.1 CDS insB NC_007613.1 141220 141723 R Code: L; COG: COG1662; IS1 ORF2 complement(141220..141723) Shigella boydii Sb227 3779480 YP_406687.1 CDS SBO_0129 NC_007613.1 142538 142747 R IS1 encoded protein complement(142538..142747) Shigella boydii Sb227 3779004 YP_406688.1 CDS insB NC_007613.1 142822 143325 D Code: L; COG: COG1662; IS1 ORF2 142822..143325 Shigella boydii Sb227 3779005 YP_406689.1 CDS folK NC_007613.1 143472 143951 R catalyzes the formation of 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine diphosphate from 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine and ATP; 2-amino-4-hydroxy-6- hydroxymethyldihydropteridine pyrophosphokinase complement(143472..143951) Shigella boydii Sb227 3779006 YP_406690.1 CDS pcnB NC_007613.1 143948 145366 R Polymerase that creates the 3' poly(A) tail found in some mRNA's; poly(A) polymerase I complement(143948..145366) Shigella boydii Sb227 3779007 YP_406691.2 CDS yadB NC_007613.1 145405 146301 R this tRNA synthetase lacks the tRNA anticodon interaction domain; instead this enzyme modifies tRNA(Asp) with glutamate by esterifying glutamate to the 2-amino-5-(4,5-dihydroxy-2-cyclopenten-1-yl) moiety of queosine generating a modified nucleoside at the first anticodon position of tRNAAsp; the modified tRNA does not bind elongation factor Tu; glutamyl-Q tRNA(Asp) synthetase complement(145405..146301) Shigella boydii Sb227 3779008 YP_406692.1 CDS dksA NC_007613.1 146368 146823 R Code: T; COG: COG1734; RNA polymerase-binding transcription factor complement(146368..146823) Shigella boydii Sb227 3779009 YP_406693.1 CDS sfsA NC_007613.1 147001 147705 R Regulatory factor involved in maltose metabolism; sugar fermentation stimulation protein A complement(147001..147705) Shigella boydii Sb227 3779010 YP_406694.1 CDS yadP NC_007613.1 147720 148259 R Code: J; COG: COG1514; hypothetical protein complement(147720..148259) Shigella boydii Sb227 3779011 YP_406695.1 CDS hrpB NC_007613.1 148279 150753 D similar in sequence to the ATP-dependent RNA helicase HrpA; ATP-dependent RNA helicase HrpB 148279..150753 Shigella boydii Sb227 3779012 YP_406696.1 CDS mrcB NC_007613.1 150949 153471 D penicillin-binding protein 1B; bifunctional periplasmic enzyme; contains transglycosylase and transpeptidase activity; major enzyme for peptidoglycan biosynthesis in Escherichia coli; transmembrane protein; forms dimers; three variants, one of which may be a degradation product, while the other appears to result from an alternative initiation site, are found within the cell; penicillin-binding protein 1b 150949..153471 Shigella boydii Sb227 3779013 YP_406697.1 CDS fhuA NC_007613.1 153691 155880 D transporter for ferrichrome, colicin M, and phages T1, T5, and phi80; involved with the transport of ferrichrome across the outer membrane; binds the ferrichrome-iron ligand and interacts with the TonB protein; ferrichrome outer membrane transporter 153691..155880 Shigella boydii Sb227 3779014 YP_406698.1 CDS fhuC NC_007613.1 155931 156728 D part of the FhuBCD ATP-dependent iron (III) hydroxamate transporter; iron-hydroxamate transporter ATP-binding subunit 155931..156728 Shigella boydii Sb227 3779015 YP_406699.1 CDS fhuD NC_007613.1 156728 157618 D Part of the FhuBCD ATP-dependent iron (III) hydroxamate transporter; binds to all hydroxamate siderophores; iron-hydroxamate transporter substrate-binding subunit 156728..157618 Shigella boydii Sb227 3779016 YP_406700.1 CDS fhuB NC_007613.1 157615 159597 D part of the FhuBCD ATP-dependent iron (III) hydroxamate transporter involved in the high-affinity transport of Fe(3+)-ferrichrome; iron-hydroxamate transporter permease subunit 157615..159597 Shigella boydii Sb227 3779017 YP_406701.1 CDS hemL NC_007613.1 159632 160912 R aminomutase; Converts (S)-4-amino-5-oxopentanoate to 5-aminolevulinate during the porphyrin biosynthesis pathway; glutamate-1-semialdehyde aminotransferase complement(159632..160912) Shigella boydii Sb227 3779018 YP_406702.1 CDS yadQ NC_007613.1 161137 162558 D Acts as an electrical shunt for an outwardly-directed proton pump that is linked to amino acid decarboxylation; chloride channel protein 161137..162558 Shigella boydii Sb227 3779019 YP_406703.1 CDS yadR NC_007613.1 162640 162984 D essential respiratory protein A; may be involved in the transfer of iron-sulfur clusters; essential for growth using oxygen or alternate electron acceptors; iron-sulfur cluster insertion protein ErpA 162640..162984 Shigella boydii Sb227 3779020 YP_406704.1 CDS yadS NC_007613.1 163031 163654 R Code: S; COG: COG2860; hypothetical protein complement(163031..163654) Shigella boydii Sb227 3779021 YP_406705.1 CDS yadT NC_007613.1 163697 164491 R solute binding component of the vitamin B12 transport system BtuCDF; vitamin B12-transporter protein BtuF complement(163697..164491) Shigella boydii Sb227 3779022 YP_406706.1 CDS pfs NC_007613.1 164484 165182 R enables the cleavage of the glycosidic bond in both 5'-methylthioadenosine and S-adenosylhomocysteine; 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase complement(164484..165182) Shigella boydii Sb227 3780070 YP_406707.1 CDS dgt NC_007613.1 165266 166783 D forms a homotetramer; requires magnesium for activity; catalyzes the hydrolysis of dGTP to form deoxyguanosine and triphosphate; deoxyguanosinetriphosphate triphosphohydrolase 165266..166783 Shigella boydii Sb227 3780071 YP_406708.1 CDS htrA NC_007613.1 166913 168337 D heat shock protein HtrA; protease Do; required at high temperature; degrades damaged proteins; serine endoprotease 166913..168337 Shigella boydii Sb227 3780072 YP_406709.2 CDS yaeG NC_007613.1 168492 169637 D regulates the expression of the operons for the enzymes involved in galactarate, glucarate and glycerate utilization; carbohydrate diacid transcriptional activator CdaR 168492..169637 Shigella boydii Sb227 3780073 YP_406710.1 CDS yaeH NC_007613.1 169726 170112 R hypothetical protein complement(169726..170112) Shigella boydii Sb227 3780074 YP_406711.2 CDS yaeI NC_007613.1 170274 171065 R Code: R; COG: COG1408; phosphodiesterase YaeI complement(170274..171065) Shigella boydii Sb227 3780075 YP_406712.1 CDS dapD NC_007613.1 171141 171965 R catalyzes the formation of N-succinyl-2-amino-6-ketopimelate from succinyl-CoA and tetrahydrodipicolinate in the lysine biosynthetic pathway; 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase complement(171141..171965) Shigella boydii Sb227 3780076 YP_406713.1 CDS glnD NC_007613.1 171996 174668 R uridylyltransferase acts on regulator of glnA; catalyzes the uridylylation or deuridylylation of the PII nitrogen regulatory protein; PII uridylyl-transferase complement(171996..174668) Shigella boydii Sb227 3780077 YP_406714.1 CDS map NC_007613.1 174730 175524 R catalyzes the removal of N-terminal amino acids from peptides and arylamides; generally Co(II) however activity has been shown for some methionine aminopeptidases with Zn, Fe, or Mn; methionine aminopeptidase complement(174730..175524) Shigella boydii Sb227 3780078 YP_406715.1 CDS rpsB NC_007613.1 175892 176617 D one of the last subunits in the assembly of the 30S subunit; absence of S2 does not inhibit assembly but results in an inactive subunit; 30S ribosomal protein S2 175892..176617 Shigella boydii Sb227 3780079 YP_406716.1 CDS tsf NC_007613.1 176875 177726 D EF-Ts; functions during elongation stage of protein translation; forms a dimer; associates with EF-Tu-GDP complex and promotes exchange of GDP to GTP resulting in regeneration of the active form of EF-Tu; elongation factor Ts 176875..177726 Shigella boydii Sb227 3780080 YP_406717.1 CDS pyrH NC_007613.1 177873 178598 D Catalyzes the phosphorylation of UMP to UDP; uridylate kinase 177873..178598 Shigella boydii Sb227 3780081 YP_406718.1 CDS frr NC_007613.1 178890 179447 D Rrf; Frr; ribosome-recycling factor; release factor 4; RF4; recycles ribosomes upon translation termination along with release factor RF-3 and elongation factor EF-G; A GTPase-dependent process results in release of 50S from 70S; inhibited by release factor RF-1; essential for viability; structurally similar to tRNAs; ribosome recycling factor 178890..179447 Shigella boydii Sb227 3780082 YP_406719.1 CDS yaeM NC_007613.1 179539 180735 D catalyzes the NADP-dependent rearrangement and reduction of 1-deoxy-D-xylulose-5-phosphate (DXP) to 2-C-methyl-D-erythritol 4-phosphate; 1-deoxy-D-xylulose 5-phosphate reductoisomerase 179539..180735 Shigella boydii Sb227 3780083 YP_406720.1 CDS yaeS NC_007613.1 180920 181681 D catalyzes the formation of undecaprenyl pyrophosphate from isopentenyl pyrophosphate; undecaprenyl pyrophosphate synthase 180920..181681 Shigella boydii Sb227 3780084 YP_406721.2 CDS cdsA NC_007613.1 181694 182551 D catalyzes the synthesis of CDP-diglyceride from CTP and phosphatidate; CDP-diglyceride synthase 181694..182551 Shigella boydii Sb227 3780085 YP_406722.1 CDS yaeL NC_007613.1 182563 183915 D catalyzes the cleavage of RseA which activates the sigmaE-mediated stress response; zinc metallopeptidase RseP 182563..183915 Shigella boydii Sb227 3780086 YP_406723.1 CDS yaeT NC_007613.1 183945 186377 D part of a complex with YfgL, YfiO, and NlpB involved in outer membrane protein biosynthesis; involved in the assembly of outer membrane proteins; outer membrane protein assembly factor YaeT 183945..186377 Shigella boydii Sb227 3780087 YP_406724.1 CDS hlpA NC_007613.1 186499 186984 D located in outer membrane or nucleoid; Code: M; COG: COG2825; periplasmic chaperone 186499..186984 Shigella boydii Sb227 3780088 YP_406725.1 CDS lpxD NC_007613.1 186988 188013 D third step of endotoxin (lipidA) synthesis; adds the O-linked and N-linked 3(R)-hydroxy fatty acids to the glucosamine disaccharide during lipid A biosynthesis; UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase 186988..188013 Shigella boydii Sb227 3780089 YP_406726.1 CDS fabZ NC_007613.1 188118 188573 D in Pseudomonas aeruginosa this enzyme is a trimer of dimers; essential for membrane formation; performs third step of type II fatty acid biosynthesis; catalyzes dehydration of (3R)-hydroxyacyl-ACP to trans-2-acyl-ACP; (3R)-hydroxymyristoyl-ACP dehydratase 188118..188573 Shigella boydii Sb227 3780264 YP_406727.1 CDS lpxA NC_007613.1 188577 189365 D lipid A biosynthesis; catalyzes the addition of (R)-3-hydroxytetradecanoyl to the glucosamine disaccharide in lipid A biosynthesis; UDP-N-acetylglucosamine acyltransferase 188577..189365 Shigella boydii Sb227 3780265 YP_406728.1 CDS lpxB NC_007613.1 189365 190513 D lipid A biosynthesis, penultimate step; catalyzes the formation of lipid A disaccharide from UDP-2,3-diacylglucosamine and 2,3-diacylglucosamine-1-phosphate, lipid A disaccharide is a precursor of lipid A that anchors LPS to the OM; lipid-A-disaccharide synthase 189365..190513 Shigella boydii Sb227 3780266 YP_406729.1 CDS rnhB NC_007613.1 190510 191106 D degrades RNA of DNA-RNA hybrids; RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids; ribonuclease HII 190510..191106 Shigella boydii Sb227 3780267 YP_406730.1 CDS dnaE NC_007613.1 191143 194571 D catalyzes DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time; main replicative polymerase; DNA polymerase III subunit alpha 191143..194571 Shigella boydii Sb227 3780268 YP_406731.1 CDS accA NC_007613.1 194637 195596 D catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer composed of two alpha (AccA) and two beta (AccD) subunits; one of the two catalytic subunits that can form the acetyl CoA carboxylase enzyme together with a carrier protein; acetyl-CoA carboxylase carboxyltransferase subunit alpha 194637..195596 Shigella boydii Sb227 3780269 YP_406732.2 CDS yaeR NC_007613.1 197861 198250 D Code: E; COG: COG0346; hypothetical protein 197861..198250 Shigella boydii Sb227 3780271 YP_406733.1 CDS tilS NC_007613.1 198315 199613 D Ligates lysine onto the cytidine present at position 34 of the AUA codon-specific tRNA(Ile) that contains the anticodon CAU; ATP-dependent; responsible for modifying the wobble-base of the CAU anticodon of tRNAIle such that it exhibits proper recognition of the AUA codon rather than the AUG codon and is in turn properly recognized by isoleucyl-tRNA synthetase; tRNA(Ile)-lysidine synthetase 198315..199613 Shigella boydii Sb227 3780272 YP_406734.1 CDS yaeO NC_007613.1 199662 199922 R Suppresses temperature-sensitive mutations in essential genes by modulating rho-dependent transcription termination; Rho-binding antiterminator complement(199662..199922) Shigella boydii Sb227 3780273 YP_406735.1 CDS yaeP NC_007613.1 199909 200109 R hypothetical protein complement(199909..200109) Shigella boydii Sb227 3780274 YP_406736.1 CDS yaeQ NC_007613.1 200275 200820 D Code: S; COG: COG4681; hypothetical protein 200275..200820 Shigella boydii Sb227 3780275 YP_406737.1 CDS yaeJ NC_007613.1 200817 201239 D Code: J; COG: COG1186; peptidyl-tRNA hydrolase domain-containing protein 200817..201239 Shigella boydii Sb227 3780276 YP_406738.1 CDS cutF NC_007613.1 201253 201963 D Code: MP; COG: COG3015; copper homeostasis and adhesion lipoprotein 201253..201963 Shigella boydii Sb227 3780277 YP_406739.1 CDS yaeF NC_007613.1 202163 202780 R hypothetical protein complement(202163..202780) Shigella boydii Sb227 3780278 YP_406740.1 CDS proS NC_007613.1 203036 204754 R catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro); prolyl-tRNA synthetase complement(203036..204754) Shigella boydii Sb227 3780279 YP_406741.1 CDS yaeB NC_007613.1 204865 205572 R Code: S; COG: COG1720; hypothetical protein complement(204865..205572) Shigella boydii Sb227 3780280 YP_406742.1 CDS rcsF NC_007613.1 205569 205973 R interacts with RcsB; outer membrane lipoprotein complement(205569..205973) Shigella boydii Sb227 3780281 YP_406743.1 CDS metQ NC_007613.1 206091 206906 R Code: P; COG: COG1464; DL-methionine transporter substrate-binding subunit complement(206091..206906) Shigella boydii Sb227 3780282 YP_406744.1 CDS yaeE NC_007613.1 206946 207599 R part of the MetNIQ methionine uptake system; DL-methionine transporter permease complement(206946..207599) Shigella boydii Sb227 3779552 YP_406745.1 CDS metN NC_007613.1 207592 208623 R part of the metNIQ transport system for methionine; DL-methionine transporter ATP-binding subunit complement(207592..208623) Shigella boydii Sb227 3779553 YP_406746.1 CDS yaeD NC_007613.1 208811 209383 D Converts the D-glycero-beta-D-manno-heptose 1,7-bisphosphate intermediate into D-glycero-beta-D-manno-heptose 1-phosphate; D,D-heptose 1,7-bisphosphate phosphatase 208811..209383 Shigella boydii Sb227 3779554 YP_406747.1 CDS dkgB NC_007613.1 215184 215924 D catalyzes the reduction of 2,5-diketo-D-gluconic acid to 2-keto-L-gulonic acid; 2,5-diketo-D-gluconate reductase B 215184..215924 Shigella boydii Sb227 3779561 YP_406748.1 CDS yafC NC_007613.1 215921 216835 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(215921..216835) Shigella boydii Sb227 3779562 YP_406749.1 CDS yafD NC_007613.1 217076 217876 D Code: S; COG: COG3021; hypothetical protein 217076..217876 Shigella boydii Sb227 3779563 YP_406750.1 CDS yafE NC_007613.1 217880 218503 D Code: QR; COG: COG0500; biotin synthesis protein 217880..218503 Shigella boydii Sb227 3779564 YP_406751.1 CDS mltD NC_007613.1 218552 219910 R cytochrome c552; catalyzes the cleavage of the beta-1,4-glycosidic bond between N-acetylmuramic acid and N-acetylglucosamine residues; may play a role in recycling muropeptides during cell division and/or cell elongation; in Helicobacter pylori MltD is a endolytic transglycosylase involved mainly in the rearrangement of the peptidoglycan layer of the bacterial cell wall; membrane-bound lytic murein transglycosylase D complement(218552..219910) Shigella boydii Sb227 3779565 YP_406752.1 CDS gloB NC_007613.1 219982 220737 R catalyzes the hydrolysis of S-D-lactoylglutathione to D-lactic acid and reduced glutathione; plays an important role in cellular detoxification using glutathione; hydroxyacylglutathione hydrolase complement(219982..220737) Shigella boydii Sb227 3779310 YP_406753.1 CDS yafS NC_007613.1 220768 221493 D Code: QR; COG: COG0500; hypothetical protein 220768..221493 Shigella boydii Sb227 3779311 YP_406754.1 CDS rnhA NC_007613.1 221490 221957 R degrades RNA of DNA-RNA hybrids, participates in DNA replication; An endonuclease that specifically degrades the RNA strand of RNA-DNA hybrids; ribonuclease H complement(221490..221957) Shigella boydii Sb227 3779312 YP_406755.1 CDS dnaQ NC_007613.1 222022 222753 D 3'-5' exonuclease of DNA polymerase III; DNA polymerase III subunit epsilon 222022..222753 Shigella boydii Sb227 3779313 YP_406756.1 CDS SBO_0206 NC_007613.1 223060 223275 R IS1 encoded protein complement(223060..223275) Shigella boydii Sb227 3779315 YP_406757.1 CDS insB NC_007613.1 223350 223853 D Code: L; COG: COG1662; IS1 ORF2 223350..223853 Shigella boydii Sb227 3779316 YP_406758.1 CDS yafV NC_007613.1 223973 224743 R Code: R; COG: COG0388; hypothetical protein complement(223973..224743) Shigella boydii Sb227 3779317 YP_406759.1 CDS ykfE NC_007613.1 224897 225370 D inactivates vertebrate C-type lysozyme; C-lysozyme inhibitor 224897..225370 Shigella boydii Sb227 3779318 YP_406760.1 CDS SBO_0210 NC_007613.1 227356 227538 R IS1 encoded protein complement(227356..227538) Shigella boydii Sb227 3779319 YP_406761.1 CDS insB NC_007613.1 227613 228116 D Code: L; COG: COG1662; IS1 ORF2 227613..228116 Shigella boydii Sb227 3779320 YP_406762.1 CDS gmhA NC_007613.1 228874 229452 D catalyzes the isomerization of sedoheptulose 7-phosphate to D-glycero-D-manno-heptose 7-phosphate; phosphoheptose isomerase 228874..229452 Shigella boydii Sb227 3779322 YP_406763.1 CDS yafJ NC_007613.1 229658 230425 D Code: R; COG: COG0121; amidotransferase 229658..230425 Shigella boydii Sb227 3779323 YP_406764.1 CDS yafK NC_007613.1 230396 231136 R Code: S; COG: COG3034; hypothetical protein complement(230396..231136) Shigella boydii Sb227 3779324 YP_406765.1 CDS insB NC_007613.1 231354 231857 R Code: L; COG: COG1662; IS1 ORF2 complement(231354..231857) Shigella boydii Sb227 3779325 YP_406766.1 CDS SBO_0217 NC_007613.1 231981 232127 D IS1 encoded protein 231981..232127 Shigella boydii Sb227 3779326 YP_406767.1 CDS SBO_0219 NC_007613.1 232625 233512 R Code: L; COG: COG2801; IS629 ORF2 complement(232625..233512) Shigella boydii Sb227 3779744 YP_406768.1 CDS SBO_0220 NC_007613.1 233512 233787 R Code: L; COG: COG2963; IS629 ORF1 complement(233512..233787) Shigella boydii Sb227 3779745 YP_406769.1 CDS SBO_0221 NC_007613.1 233890 234210 R hypothetical protein complement(233890..234210) Shigella boydii Sb227 3779746 YP_406770.1 CDS rpmE2 NC_007613.1 236559 236822 D RpmE2; there appears to be two types of ribosomal proteins L31 in bacterial genomes; some contain a CxxC motif while others do not; Bacillus subtilis has both types; the proteins in this cluster do not have the CXXC motif; RpmE is found in exponentially growing Bacilli while YtiA was found after exponential growth; expression of ytiA is controlled by a zinc-specific transcriptional repressor; RpmE contains one zinc ion and a CxxC motif is responsible for this binding; forms an RNP particle along with proteins L5, L18, and L25 and 5S rRNA; found crosslinked to L2 and L25 and EF-G; may be near the peptidyltransferase site of the 50S ribosome; 50S ribosomal protein L31 236559..236822 Shigella boydii Sb227 3779748 YP_406771.1 CDS ykgK NC_007613.1 237999 238589 D Code: K; COG: COG2771; regulator 237999..238589 Shigella boydii Sb227 3779750 YP_406772.1 CDS yagZ NC_007613.1 238615 239250 D hypothetical protein 238615..239250 Shigella boydii Sb227 3779751 YP_406773.1 CDS yagY NC_007613.1 239308 239976 D hypothetical protein 239308..239976 Shigella boydii Sb227 3779752 YP_406774.1 CDS SBO_0230 NC_007613.1 243550 244389 R Code: L; COG: COG2801; IS911 ORF2 complement(243550..244389) Shigella boydii Sb227 3779755 YP_406775.1 CDS SBO_0231 NC_007613.1 245128 245841 D Code: L; COG: COG2801; IS600 ORF2 245128..245841 Shigella boydii Sb227 3779756 YP_406776.2 CDS SBO_0232 NC_007613.1 246357 247118 D hypothetical protein 246357..247118 Shigella boydii Sb227 3779757 YP_406777.1 CDS sigA NC_007613.1 247479 251336 D serine protease 247479..251336 Shigella boydii Sb227 3779758 YP_406778.1 CDS insB NC_007613.1 252006 252401 R Code: L; COG: COG1662; IS1 ORF2 complement(252006..252401) Shigella boydii Sb227 3779759 YP_406779.1 CDS SBO_0235 NC_007613.1 252590 252865 D Code: L; COG: COG2963; IS629 ORF1 252590..252865 Shigella boydii Sb227 3779760 YP_406780.1 CDS SBO_0236 NC_007613.1 252865 253752 D Code: L; COG: COG2801; IS629 ORF2 252865..253752 Shigella boydii Sb227 3779761 YP_406781.1 CDS SBO_0237 NC_007613.1 253816 254829 D Code: L; COG: COG3436; protein encoded within IS 253816..254829 Shigella boydii Sb227 3779762 YP_406782.1 CDS SBO_0238 NC_007613.1 254842 255408 D protein encoded within IS 254842..255408 Shigella boydii Sb227 3779763 YP_406783.1 CDS SBO_0239 NC_007613.1 255428 255811 D hypothetical protein 255428..255811 Shigella boydii Sb227 3780169 YP_406784.1 CDS SBO_0240 NC_007613.1 255790 256986 R Code: L; COG: COG3547; ISSfl2 ORF complement(255790..256986) Shigella boydii Sb227 3780170 YP_406785.1 CDS SBO_0241 NC_007613.1 257263 257832 D hypothetical protein 257263..257832 Shigella boydii Sb227 3780171 YP_406786.1 CDS prfH NC_007613.1 257943 258443 D similar to release factor 1 and 2; peptide chain release factor-like protein 257943..258443 Shigella boydii Sb227 3780172 YP_406787.1 CDS pepD NC_007613.1 258500 259957 R peptidase D; Code: E; COG: COG2195; aminoacyl-histidine dipeptidase complement(258500..259957) Shigella boydii Sb227 3780173 YP_406788.1 CDS gpt NC_007613.1 260218 260676 D catalyzes the conversion of guanine, xanthine and, to a lesser extent, hypoxanthine to GMP, XMP and IMP, respectively; xanthine-guanine phosphoribosyltransferase 260218..260676 Shigella boydii Sb227 3780174 YP_406789.1 CDS frsA NC_007613.1 260768 262012 D forms a 1:1 complex with the unphosphorylated from of enzyme IIAGlc; FrsA may promote fermentation; fermentation/respiration switch protein 260768..262012 Shigella boydii Sb227 3780175 YP_406790.1 CDS crl NC_007613.1 262070 262471 D transcriptional regulator of cryptic csgA gene for curli surface fibers; involved in the expression of csgBA which is involved in curli formation; interacts with sigmaS; DNA-binding transcriptional regulator Crl 262070..262471 Shigella boydii Sb227 3780176 YP_406791.1 CDS phoE NC_007613.1 262510 263565 R E,Ic,NmpAB; Code: M; COG: COG3203; outer membrane phosphoporin protein E complement(262510..263565) Shigella boydii Sb227 3780177 YP_406792.1 CDS proB NC_007613.1 263853 264956 D catalyzes the formation of glutamate 5-phosphate from glutamate in proline biosynthesis; gamma-glutamyl kinase 263853..264956 Shigella boydii Sb227 3780178 YP_406793.1 CDS proA NC_007613.1 264968 266221 D Catalyzes the phosphorylation of L-glutamate during the proline biosynthesis pathway; gamma-glutamyl phosphate reductase 264968..266221 Shigella boydii Sb227 3780179 YP_406794.1 CDS SBO_0251 NC_007613.1 266426 267589 R Code: L; COG: COG0582; phage integrase complement(266426..267589) Shigella boydii Sb227 3780181 YP_406795.1 CDS SBO_0252 NC_007613.1 268049 268936 R Code: L; COG: COG2801; IS629 ORF2 complement(268049..268936) Shigella boydii Sb227 3780182 YP_406796.1 CDS SBO_0253 NC_007613.1 268936 269433 R Code: L; COG: COG2963; IS629 ORF1 complement(268936..269433) Shigella boydii Sb227 3780183 YP_406797.1 CDS ymfL NC_007613.1 269875 270444 R hypothetical protein complement(269875..270444) Shigella boydii Sb227 3780184 YP_406798.1 CDS SBO_0256 NC_007613.1 270476 270979 R hypothetical protein complement(270476..270979) Shigella boydii Sb227 3780186 YP_406799.1 CDS SBO_0255 NC_007613.1 270767 271441 D Code: KT; COG: COG1974; phage repressor 270767..271441 Shigella boydii Sb227 3780185 YP_406800.1 CDS SBO_0257 NC_007613.1 272644 272847 R IS1 encoded protein complement(272644..272847) Shigella boydii Sb227 3779102 YP_406801.1 CDS insB NC_007613.1 272922 273425 D Code: L; COG: COG1662; IS1 ORF2 272922..273425 Shigella boydii Sb227 3779103 YP_406802.2 CDS tauA NC_007613.1 273524 274486 D with TauB and TauC is responsible for taurine uptake.; taurine transporter substrate binding subunit 273524..274486 Shigella boydii Sb227 3779104 YP_406803.1 CDS tauB NC_007613.1 274499 275266 D Part of the ABC transporter complex tauABC involved in taurine import; taurine transporter ATP-binding subunit 274499..275266 Shigella boydii Sb227 3779105 YP_406804.1 CDS tauC NC_007613.1 275263 276072 D Code: P; COG: COG0600; taurine transporter subunit 275263..276072 Shigella boydii Sb227 3779106 YP_406805.1 CDS tauD NC_007613.1 276087 276938 D 2-oxoglutarate-dependent; catalyzes the conversion of taurine (2-aminoethanesulfonate) to sulfite and aminoacetaldehyde concurrently with the conversion of alpha-ketoglutarate to succinate and carbon dioxide; non-heme iron oxidase; allows the use of taurine as an alternative sulfur source; forms homodimers; taurine dioxygenase 276087..276938 Shigella boydii Sb227 3779107 YP_406806.1 CDS hemB NC_007613.1 277044 278051 R porphobilinogen synthase; catalyzes the formation of porphobilinogen from 5-aminolevulinate; delta-aminolevulinic acid dehydratase complement(277044..278051) Shigella boydii Sb227 3779108 YP_406807.1 CDS insB NC_007613.1 278432 278935 R Code: L; COG: COG1662; IS1 ORF2 complement(278432..278935) Shigella boydii Sb227 3779109 YP_406808.1 CDS SBO_0265 NC_007613.1 279010 279240 D IS1 encoded protein 279010..279240 Shigella boydii Sb227 3779110 YP_406809.1 CDS SBO_0266 NC_007613.1 279465 279830 D IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein 279465..279830 Shigella boydii Sb227 3779111 YP_406810.2 CDS SBO_0267 NC_007613.1 279788 280693 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 279788..280693 Shigella boydii Sb227 3779112 YP_406811.1 CDS SBO_0268 NC_007613.1 280722 281561 R Code: L; COG: COG2801; IS911 ORF2 complement(280722..281561) Shigella boydii Sb227 3779113 YP_406812.1 CDS yaiU NC_007613.1 282183 283589 D Code: MU; COG: COG3468; flagellin structural protein 282183..283589 Shigella boydii Sb227 3779114 YP_406813.1 CDS yaiV NC_007613.1 283632 284300 D DNA-binding transcriptional regulator 283632..284300 Shigella boydii Sb227 3779115 YP_406814.1 CDS yaiH NC_007613.1 284301 285458 R this protein has no known enzymatic function; beta-lactam binding protein AmpH complement(284301..285458) Shigella boydii Sb227 3779116 YP_406815.1 CDS sbmA NC_007613.1 285810 287030 D sensitivity to microcin B17, possibly envelop protein; in Escherichia coli SbmA is involved in uptake of microcin J25; functions along with FhuA, TonB, and ExbB/D in this capacity; in Sinorhizobium meliloti, BacA is essential and required for symbiosis; defects appear to affect the cell envelope; transporter 285810..287030 Shigella boydii Sb227 3779117 YP_406816.1 CDS yaiW NC_007613.1 287043 288137 D hypothetical protein 287043..288137 Shigella boydii Sb227 3779118 YP_406817.1 CDS SBO_0274 NC_007613.1 288196 288504 R hypothetical protein complement(288196..288504) Shigella boydii Sb227 3779119 YP_406818.1 CDS SBO_0275 NC_007613.1 288632 288976 D hypothetical protein 288632..288976 Shigella boydii Sb227 3779120 YP_406819.1 CDS ddl NC_007613.1 289000 290094 R D-alanine--D-alanine ligase; DdlA; DdlB; cytoplasmic; catalyzes the formation of D-alanyl-D-alanine from two D-alanines in peptidoglycan synthesis; there are two forms of this enzyme in Escherichia coli; D-alanyl-alanine synthetase A complement(289000..290094) Shigella boydii Sb227 3779121 YP_406820.1 CDS yaiB NC_007613.1 290556 290816 D hypothetical protein 290556..290816 Shigella boydii Sb227 3779725 YP_406821.1 CDS phoA NC_007613.1 290848 292332 D Code: P; COG: COG1785; alkaline phosphatase 290848..292332 Shigella boydii Sb227 3779726 YP_406822.1 CDS psiF NC_007613.1 292433 292771 D induced by phosphate starvation; hypothetical protein 292433..292771 Shigella boydii Sb227 3779727 YP_406823.1 CDS adrA NC_007613.1 292873 293988 D catalyzes the conversion of 2 GTP into c-di-GMP; adrA overexpression induces cellulose biosynthesis, cell adherence to abiotic surfaces and swimming and swarming motility; AdrA acts post-transcriptionally on the bcsABZC operon activating cellulose biosynthesis; diguanylate cyclase AdrA 292873..293988 Shigella boydii Sb227 3779728 YP_406824.1 CDS proC NC_007613.1 294005 294814 R catalyzes the formation of L-proline from pyrroline-5-carboxylate; pyrroline-5-carboxylate reductase complement(294005..294814) Shigella boydii Sb227 3779730 YP_406825.2 CDS yaiI NC_007613.1 294934 295392 D Code: S; COG: COG1671; hypothetical protein 294934..295392 Shigella boydii Sb227 3779729 YP_406826.1 CDS aroL NC_007613.1 295575 296099 D type II enzyme similar to type I but differentially regulated and with a lower Km; catalyzes the formation of shikimate 3-phosphate from shikimate in aromatic amino acid biosynthesis; shikimate kinase 295575..296099 Shigella boydii Sb227 3779731 YP_406827.1 CDS yaiA NC_007613.1 296149 296340 D hypothetical protein 296149..296340 Shigella boydii Sb227 3779732 YP_406828.1 CDS aroM NC_007613.1 296598 297275 D protein of aro operon, regulated by aroR; hypothetical protein 296598..297275 Shigella boydii Sb227 3779733 YP_406829.1 CDS yaiE NC_007613.1 297347 297631 D Code: S; COG: COG3123; hypothetical protein 297347..297631 Shigella boydii Sb227 3779734 YP_406830.1 CDS SBO_0287 NC_007613.1 297839 298120 D hypothetical protein 297839..298120 Shigella boydii Sb227 3779735 YP_406831.1 CDS rdgC NC_007613.1 298278 299189 R Required for efficient pilin antigenic variation; recombination associated protein complement(298278..299189) Shigella boydii Sb227 3779737 YP_406832.1 CDS araJ NC_007613.1 300366 301550 R involved in either transport or processing of arabinose polymers; member of the major facilitator superfamily (MFS) of transporters; unknown function; may be associated with transport or processing of arabinose polymers; MFS transport protein AraJ complement(300366..301550) Shigella boydii Sb227 3779738 YP_406833.1 CDS sbcC NC_007613.1 301676 304819 R with SbcD cleaves DNA hairpin structures; also has 5' single-strand endonuclease activity; exonuclease subunit SbcC complement(301676..304819) Shigella boydii Sb227 3779739 YP_406834.1 CDS sbcD NC_007613.1 304816 306018 R with SbcC cleaves DNA hairpin structure, also has 5' single-strand endonuclease activity; exonuclease subunit SbcD complement(304816..306018) Shigella boydii Sb227 3779740 YP_406835.1 CDS phoB NC_007613.1 306208 306897 D sensor is PhoR (or CreC); two component response regulator for the phosphate regulon; PhoR phosphorylates PhoB; transcriptional regulator PhoB 306208..306897 Shigella boydii Sb227 3779741 YP_406836.1 CDS phoR NC_007613.1 306955 308250 D membrane-associated histidine protein kinase that phosphorylates phoB in response to environmental signals as part of the two-component phosphate regulatory system phoR/phoB; phosphate regulon sensor protein 306955..308250 Shigella boydii Sb227 3779742 YP_406837.1 CDS brnQ NC_007613.1 308657 309976 D Code: E; COG: COG1114; branched chain amino acid transport system II carrier protein 308657..309976 Shigella boydii Sb227 3779743 YP_406838.1 CDS proY NC_007613.1 310052 311425 D cryptic permease that may be involved in the transport of proline across the inner membrane; in Salmonella typhimurium, the proY gene is silent unless overexpressed on a multicopy plasmid or activated by a proZ mutation; proline-specific permease 310052..311425 Shigella boydii Sb227 3779290 YP_406839.1 CDS yajB NC_007613.1 313308 313889 R Converts holo-ACP to apo-ACP by hydrolytic cleavage of the phosphopantetheine prosthetic group from ACP; acyl carrier protein phosphodiesterase complement(313308..313889) Shigella boydii Sb227 3779292 YP_406840.1 CDS queA NC_007613.1 313982 315052 D synthesis of queuine in tRNA; Synthesizes oQ from preQ1 in a single S-adenosylmethionine-requiring step; S-adenosylmethionine--tRNA ribosyltransferase-isomerase 313982..315052 Shigella boydii Sb227 3779293 YP_406841.1 CDS tgt NC_007613.1 315108 316235 D Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr); queuine tRNA-ribosyltransferase 315108..316235 Shigella boydii Sb227 3779294 YP_406842.1 CDS yajC NC_007613.1 316258 316590 D member of preprotein translocase; forms a heterotrimer with SecD and SecF; links the SecD/SecF/YajC/YidC complex with the SecY/SecE/SecG complex; preprotein translocase subunit YajC 316258..316590 Shigella boydii Sb227 3779295 YP_406843.1 CDS secD NC_007613.1 316618 318465 D protein secretion; membrane protein, part of the channel; part of the preprotein secretory system; when complexed with proteins SecF and YajC, SecDFyajC stimulates the proton motive force-driven protein translocation, and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane; preprotein translocase subunit SecD 316618..318465 Shigella boydii Sb227 3779296 YP_406844.1 CDS secF NC_007613.1 318476 319447 D protein secretion, membrane protein; forms a complex with SecD and YajC; SecDFyajC stimulates the proton motive force-driven protein translocation; seems to modulate the cycling of SecA by stabilizing its membrane-inserted state and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane; in some organisms, such as Bacillus subtilis, SecD is fused to SecF; preprotein translocase subunit SecF 318476..319447 Shigella boydii Sb227 3779297 YP_406845.1 CDS yajD NC_007613.1 319576 319923 D Code: V; COG: COG1403; hypothetical protein 319576..319923 Shigella boydii Sb227 3779298 YP_406846.1 CDS tsx NC_007613.1 320100 320984 R nucleoside channel; receptor of phage T6 and colicin K; Code: M; COG: COG3248; hypothetical protein complement(320100..320984) Shigella boydii Sb227 3779299 YP_406847.2 CDS yajI NC_007613.1 321283 321822 R hypothetical protein complement(321283..321822) Shigella boydii Sb227 3779300 YP_406848.1 CDS nrdR NC_007613.1 321973 322422 D Code: K; COG: COG1327; transcriptional regulator NrdR 321973..322422 Shigella boydii Sb227 3779301 YP_406849.1 CDS ribD NC_007613.1 322426 323529 D riboflavin biosynthesis protein which catalyzes the deamination and reduction steps in the riboflavin biosynthesis pathway; catalyzes the formation of 5-amino-6-(5-phosphoribosylamino)uracil from 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine and the formation of 5-amino-6-(5-phosphoribosylamino)uracil from 5-amino-6-(5-phosphoribitylamino)uracil; bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase 322426..323529 Shigella boydii Sb227 3779302 YP_406850.1 CDS ribH NC_007613.1 323618 324088 D RibE; 6,7-diimethyl-8-ribityllumazine synthase; DMRL synthase; lumazine synthase; beta subunit of riboflavin synthase; condenses 5-amino-6-(1'-D)-ribityl-amino-2,4(1H,3H)-pyrimidinedione with L-3,4-dihydrohy-2-butanone-4-phosphate to generate 6,6-dimethyl-8-lumazine (DMRL); riboflavin synthase then uses 2 molecules of DMRL to produce riboflavin (vitamin B12); involved in the last steps of riboflavin biosynthesis; forms a 60mer (icosahedral shell) in both Bacillus subtilis and Escherichia coli; in Bacillus subtilis this 60mer is associated with the riboflavin synthase subunit (alpha) while in Escherichia coli it is not; 6,7-dimethyl-8-ribityllumazine synthase 323618..324088 Shigella boydii Sb227 3779303 YP_406851.1 CDS nusB NC_007613.1 324108 324527 D transcription termination; L factor; Regulates rRNA biosynthesis by transcriptional antitermination; transcription antitermination protein NusB 324108..324527 Shigella boydii Sb227 3779304 YP_406852.1 CDS thiL NC_007613.1 324605 325582 D catalyzes the formation of thiamine diphosphate from thiamine phosphate ant ATP; thiamine monophosphate kinase 324605..325582 Shigella boydii Sb227 3779305 YP_406853.1 CDS pgpA NC_007613.1 325560 326078 D hydrolyzes phosphatidylglycerophosphate to produce phosphatidylglycerol and phosphate; phosphatidylglycerophosphatase A 325560..326078 Shigella boydii Sb227 3779306 YP_406854.1 CDS yajO NC_007613.1 326132 327106 R Code: C; COG: COG0667; NAD(P)H-dependent xylose reductase complement(326132..327106) Shigella boydii Sb227 3779307 YP_406855.1 CDS dxs NC_007613.1 327161 329023 R flavoprotein; catalyzes the formation of 1-deoxy-D-xylulose 5-phosphate from pyruvate and D-glyceraldehyde 3-phosphate; 1-deoxy-D-xylulose-5-phosphate synthase complement(327161..329023) Shigella boydii Sb227 3779308 YP_406856.1 CDS ispA NC_007613.1 329048 329947 R farnesyldiphosphate synthase; Code: H; COG: COG0142; geranyltranstransferase complement(329048..329947) Shigella boydii Sb227 3779309 YP_406857.1 CDS xseB NC_007613.1 329947 330189 R catalyzes the bidirectional exonucleolytic cleavage of DNA; exodeoxyribonuclease VII small subunit complement(329947..330189) Shigella boydii Sb227 3779328 YP_406858.1 CDS yajK NC_007613.1 330395 331843 D Required for the synthesis of the thiazole moiety; thiamine biosynthesis protein ThiI 330395..331843 Shigella boydii Sb227 3779329 YP_406859.1 CDS thiJ NC_007613.1 331897 332493 R Code: R; COG: COG0693; DJ-1 family protein complement(331897..332493) Shigella boydii Sb227 3779330 YP_406860.1 CDS apbA NC_007613.1 332450 333361 R involved in thiamin biosynthesis, alternative pyrimidine biosynthesis; ketopantoate reductase; catalyzes the NADPH reduction of ketopantoate to pantoate; functions in pantothenate (vitamin B5) biosynthesis; 2-dehydropantoate 2-reductase complement(332450..333361) Shigella boydii Sb227 3779331 YP_406861.2 CDS yajQ NC_007613.1 333529 334020 D nucleotide binding property based on structural studies of Haemophilus influenzae crystallized protein in PDB Accession Number 1IN0 and NMR studies of Escherichia coli YajQ; the YajQ protein from Pseudomonas synringae appears to play a role in activation of bateriophage phi6 segment L transcription; nucleotide-binding protein 333529..334020 Shigella boydii Sb227 3779332 YP_406862.1 CDS yajR NC_007613.1 334148 335518 R Code: GEPR; COG: COG0477; transporter complement(334148..335518) Shigella boydii Sb227 3779333 YP_406863.1 CDS cyoE NC_007613.1 335661 336551 R haeme O biosynthesis; converts protoheme IX and farnesyl diphosphate to heme O; protoheme IX farnesyltransferase complement(335661..336551) Shigella boydii Sb227 3779334 YP_406864.1 CDS cyoD NC_007613.1 336563 336892 R Code: C; COG: COG3125; cytochrome o ubiquinol oxidase subunit IV complement(336563..336892) Shigella boydii Sb227 3779335 YP_406865.1 CDS cyoC NC_007613.1 336892 337506 R Code: C; COG: COG1845; cytochrome o ubiquinol oxidase subunit III complement(336892..337506) Shigella boydii Sb227 3779336 YP_406866.1 CDS cyoB NC_007613.1 337496 339487 R Code: C; COG: COG0843; cytochrome o ubiquinol oxidase subunit I complement(337496..339487) Shigella boydii Sb227 3779337 YP_406867.1 CDS cyoA NC_007613.1 339509 340456 R Code: C; COG: COG1622; cytochrome o ubiquinol oxidase subunit II complement(339509..340456) Shigella boydii Sb227 3779338 YP_406868.1 CDS ampG NC_007613.1 340917 342392 R regulates beta-lactamase synthesis; in Escherichia coli this protein is a permease involved in peptidoglycan recycling; member of major facilitator superfamily; MFS; inner membrane protein; muropeptide transporter complement(340917..342392) Shigella boydii Sb227 3779339 YP_406869.2 CDS yajG NC_007613.1 342436 343014 R Code: M; COG: COG3056; hypothetical protein complement(342436..343014) Shigella boydii Sb227 3779340 YP_406870.2 CDS bolA NC_007613.1 343319 343636 D positive transcriptional regulator of morphogenetic pathway; controlling several genes involved in oxidative stress, acid stress, heat shock, osmotic shock, and carbon-starvation stress; transcriptional regulator BolA 343319..343636 Shigella boydii Sb227 3779341 YP_406871.1 CDS tig NC_007613.1 343980 345278 D a molecular chaperone involved in cell division; Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer; trigger factor 343980..345278 Shigella boydii Sb227 3779342 YP_406872.1 CDS clpP NC_007613.1 345525 346148 D heat shock protein F21.5; hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates; ATP-dependent Clp protease proteolytic subunit 345525..346148 Shigella boydii Sb227 3779343 YP_406873.1 CDS clpX NC_007613.1 346274 347548 D chaperone; binds and unfolds substrates as part of the ClpXP protease; ATP-dependent protease ATP-binding subunit ClpX 346274..347548 Shigella boydii Sb227 3779344 YP_406874.1 CDS lon NC_007613.1 347736 350090 D heat shock K-protein; Code: O; COG: COG0466; DNA-binding ATP-dependent protease La 347736..350090 Shigella boydii Sb227 3779345 YP_406875.1 CDS hupB NC_007613.1 350299 350571 D NS1 (HU-1); histone-like DNA-binding protein; transcriptional regulator HU subunit beta 350299..350571 Shigella boydii Sb227 3779346 YP_406876.1 CDS ybaU NC_007613.1 350763 352634 D Code: O; COG: COG0760; peptidyl-prolyl cis-trans isomerase 350763..352634 Shigella boydii Sb227 3779423 YP_406877.1 CDS ybaV NC_007613.1 352785 353156 D Code: L; COG: COG1555; hypothetical protein 352785..353156 Shigella boydii Sb227 3779424 YP_406878.1 CDS ybaW NC_007613.1 353250 353648 D Code: R; COG: COG0824; hypothetical protein 353250..353648 Shigella boydii Sb227 3779425 YP_406879.1 CDS ybaX NC_007613.1 353700 354395 R YbaX; catalyzes the transformation of GTP to 7-cyano-7-deazaguanine (preQ0), as one of the early reactions of quenosine biosynthesis; quenosine is a modified nucleoside that occurs at the wobble position of GUN anticodons in tRNAs for Asn, Asp, Tyr, and His; queuosine biosynthesis protein QueC complement(353700..354395) Shigella boydii Sb227 3779426 YP_406880.1 CDS ybaE NC_007613.1 354460 356160 R Code: R; COG: COG4533; hypothetical protein complement(354460..356160) Shigella boydii Sb227 3779427 YP_406881.1 CDS cof NC_007613.1 356260 357042 D Code: R; COG: COG0561; hypothetical protein 356260..357042 Shigella boydii Sb227 3779428 YP_406882.1 CDS ybaO NC_007613.1 357144 357689 D Code: K; COG: COG1522; LRP-like transcriptional regulator 357144..357689 Shigella boydii Sb227 3779429 YP_406883.1 CDS mdlA NC_007613.1 357719 359380 D Code: V; COG: COG1132; multidrug transporter membrane\ATP-binding components 357719..359380 Shigella boydii Sb227 3779430 YP_406884.1 CDS SBO_0343 NC_007613.1 359485 360504 D Code: L; COG: COG3547; transposase 359485..360504 Shigella boydii Sb227 3779431 YP_406885.1 CDS mdlB NC_007613.1 360927 362708 D Code: V; COG: COG1132; multidrug transporter membrane\ATP-binding components 360927..362708 Shigella boydii Sb227 3779432 YP_406886.1 CDS glnK NC_007613.1 362889 363227 D indirectly regulates nitrogen metabolism; at high nitrogen levels P-II 2 prevents the phosphorylation of NR-I, the transcriptional activator of the glutamine synthetase gene (glnA); at low nitrogen levels P-II 2 is uridylylated to form PII-UMP and interacts with an adenylyltransferase (GlnE) that activates GlnA; functionally it is equivalent to protein P-II (GlnB), but itsexpression is driven by the presence of uridylyltransferase, nitrogen regulator I, and the absence of ammonia.; nitrogen regulatory protein P-II 2 362889..363227 Shigella boydii Sb227 3779433 YP_406887.1 CDS amtB NC_007613.1 363257 364543 D Code: P; COG: COG0004; ammonium transporter 363257..364543 Shigella boydii Sb227 3779434 YP_406888.1 CDS tesB NC_007613.1 364592 365452 R Code: I; COG: COG1946; acyl-CoA thioesterase II complement(364592..365452) Shigella boydii Sb227 3779435 YP_406889.1 CDS ybaY NC_007613.1 365670 366242 D Code: S; COG: COG3126; glycoprotein/polysaccharide metabolism 365670..366242 Shigella boydii Sb227 3779436 YP_406890.1 CDS ybaZ NC_007613.1 366273 366662 R Code: L; COG: COG3695; hypothetical protein complement(366273..366662) Shigella boydii Sb227 3779437 YP_406891.1 CDS ybaA NC_007613.1 366963 367316 D Code: S; COG: COG5507; hypothetical protein 366963..367316 Shigella boydii Sb227 3779438 YP_406892.1 CDS SBO_0351 NC_007613.1 367345 367515 R IS1 encoded protein complement(367345..367515) Shigella boydii Sb227 3779439 YP_406893.1 CDS insB NC_007613.1 367608 368111 D Code: L; COG: COG1662; IS1 ORF2 367608..368111 Shigella boydii Sb227 3779440 YP_406894.1 CDS ylaB NC_007613.1 368134 369630 R Code: T; COG: COG4943; hypothetical protein complement(368134..369630) Shigella boydii Sb227 3779441 YP_406895.2 CDS SBO_0354 NC_007613.1 369641 370546 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(369641..370546) Shigella boydii Sb227 3779442 YP_406896.1 CDS SBO_0355 NC_007613.1 370504 370869 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(370504..370869) Shigella boydii Sb227 3780206 YP_406897.1 CDS SBO_0356 NC_007613.1 371026 371313 D Code: L; COG: COG2963; IS600 ORF1 371026..371313 Shigella boydii Sb227 3780207 YP_406898.1 CDS SBO_0357 NC_007613.1 371468 372181 D Code: L; COG: COG2801; IS600 ORF2 371468..372181 Shigella boydii Sb227 3780208 YP_406899.1 CDS ylaD NC_007613.1 372678 373229 R Code: R; COG: COG0110; maltose O-acetyltransferase complement(372678..373229) Shigella boydii Sb227 3780210 YP_406900.1 CDS hha NC_007613.1 373401 373619 R with Hns involved in transcriptional regulation of hemolysin; non-specific DNA-binding protein which affects the production of multiple proteins; hemolysin expression-modulating protein complement(373401..373619) Shigella boydii Sb227 3780211 YP_406901.1 CDS ybaJ NC_007613.1 373645 374019 R hypothetical protein complement(373645..374019) Shigella boydii Sb227 3780212 YP_406902.1 CDS acrB NC_007613.1 374565 377714 R Code: V; COG: COG0841; acridine efflux pump complement(374565..377714) Shigella boydii Sb227 3780213 YP_406903.1 CDS acrA NC_007613.1 377737 378930 R Code: M; COG: COG0845; acridine efflux pump complement(377737..378930) Shigella boydii Sb227 3780214 YP_406904.1 CDS acrR NC_007613.1 379072 379719 D regulates the acrAB operon which is involved in susceptibility to dephalothin and cephaloridine; DNA-binding transcriptional repressor AcrR 379072..379719 Shigella boydii Sb227 3780215 YP_406905.1 CDS aefA NC_007613.1 379847 383209 D small mechanosensitive ion channel (MscS) that opens in response to stretch forces in the membrane lipid bilayer; maintains cell turgor through accumulation and release of potassium; large protein class of MscS; potassium efflux protein KefA 379847..383209 Shigella boydii Sb227 3780216 YP_406906.1 CDS ybaM NC_007613.1 383421 383582 R hypothetical protein complement(383421..383582) Shigella boydii Sb227 3780217 YP_406907.1 CDS priC NC_007613.1 383596 384123 R PriC; protein involved in DNA replication; part of the primosome, a protein complex required to restart stalled replication forks; binds the complex formed by PriA, PriB and DNA; PriC-dependent primosome requires a gap to restart DNA replication; stimulates Rep activity at stalled forks; primosomal replication protein N'' complement(383596..384123) Shigella boydii Sb227 3780218 YP_406908.1 CDS ybaN NC_007613.1 384193 384570 D Code: S; COG: COG2832; hypothetical protein 384193..384570 Shigella boydii Sb227 3780219 YP_406909.1 CDS apt NC_007613.1 384722 385273 D catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis; adenine phosphoribosyltransferase 384722..385273 Shigella boydii Sb227 3780220 YP_406910.1 CDS dnaX NC_007613.1 385402 387273 D DNA elongation factor III; catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; the tau chain serves as a scaffold to help in the dimerizaton of the alpha,epsilon and theta core complex; the gamma chain seems to interact with the delta and delta' subunits to transfer the beta subunit on the DNA; DNA polymerase III subunits gamma and tau 385402..387273 Shigella boydii Sb227 3780221 YP_406911.1 CDS ybaB NC_007613.1 387326 387655 D Code: S; COG: COG0718; hypothetical protein 387326..387655 Shigella boydii Sb227 3780222 YP_406912.1 CDS recR NC_007613.1 387655 388260 D involved in a recombinational process of DNA repair, independent of the recBC complex; recombination protein RecR 387655..388260 Shigella boydii Sb227 3780223 YP_406913.1 CDS htpG NC_007613.1 388370 390244 D heat shock protein C 62.5; molecular chaperone; heat shock protein 90 388370..390244 Shigella boydii Sb227 3780224 YP_406914.1 CDS adk NC_007613.1 390425 391069 D pleiotropic effects on glycerol-3-phosphate acyltransferase activity; essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP; adenylate kinase 390425..391069 Shigella boydii Sb227 3779582 YP_406915.1 CDS hemH NC_007613.1 391201 392163 D final enzyme of heme biosynthesis; protoheme ferro-lyase; catalyzes the insertion of a ferrous ion into protoporphyrin IX to form protoheme; involved in protoheme biosynthesis; in some organisms this protein is membrane-associated while in others it is cytosolic; ferrochelatase 391201..392163 Shigella boydii Sb227 3779583 YP_406916.1 CDS ybaC NC_007613.1 392160 393119 R Code: I; COG: COG0657; acetyl esterase complement(392160..393119) Shigella boydii Sb227 3779584 YP_406917.1 CDS gsk NC_007613.1 393271 394575 D Code: G; COG: COG0524; inosine-guanosine kinase 393271..394575 Shigella boydii Sb227 3779585 YP_406918.1 CDS ybaL NC_007613.1 394708 396384 R YbaL; member of the CPA-2 family of antiporters; uncharacterized protein; cation:proton antiport protein complement(394708..396384) Shigella boydii Sb227 3779586 YP_406919.1 CDS SBO_0379 NC_007613.1 397080 397262 R IS1 encoded protein complement(397080..397262) Shigella boydii Sb227 3779587 YP_406920.1 CDS insB NC_007613.1 397355 397858 D Code: L; COG: COG1662; IS1 ORF2 397355..397858 Shigella boydii Sb227 3779588 YP_406921.1 CDS ushA NC_007613.1 398837 400489 D 5'-nucleotidase; catalyzes the degradation of periplasmic UDP-glucose to uridine, glucose-1-phosphate and inorganic phosphate; specific for uridine nucleotides; bifunctional UDP-sugar hydrolase/5'-nucleotidase 398837..400489 Shigella boydii Sb227 3779590 YP_406922.1 CDS ybaK NC_007613.1 400526 401005 R Code: S; COG: COG2606; hypothetical protein complement(400526..401005) Shigella boydii Sb227 3779591 YP_406923.1 CDS ybaP NC_007613.1 401209 402003 R Code: S; COG: COG3735; ligase complement(401209..402003) Shigella boydii Sb227 3779592 YP_406924.1 CDS ybaQ NC_007613.1 402087 402482 D Code: R; COG: COG3093; hypothetical protein 402087..402482 Shigella boydii Sb227 3779593 YP_406925.1 CDS copA NC_007613.1 402697 405201 R Code: P; COG: COG2217; copper exporting ATPase complement(402697..405201) Shigella boydii Sb227 3779594 YP_406926.1 CDS ybaS NC_007613.1 405463 406395 D catalyzes the formation of glutamate from glutamine; glutaminase 405463..406395 Shigella boydii Sb227 3779595 YP_406927.1 CDS ybaT NC_007613.1 406398 407690 D Code: E; COG: COG0531; amino acid/amine transport protein 406398..407690 Shigella boydii Sb227 3779596 YP_406928.1 CDS ybbI NC_007613.1 407815 408222 D activator of copper-responsive regulon genes; DNA-binding transcriptional regulator CueR 407815..408222 Shigella boydii Sb227 3779597 YP_406929.1 CDS ybbJ NC_007613.1 408223 408678 R Code: OU; COG: COG1585; hypothetical protein complement(408223..408678) Shigella boydii Sb227 3779598 YP_406930.1 CDS ybbK NC_007613.1 408678 409595 R Code: O; COG: COG0330; protease complement(408678..409595) Shigella boydii Sb227 3779599 YP_406931.1 CDS ybbL NC_007613.1 409741 410418 D Code: R; COG: COG4619; ABC transporter ATP-binding protein 409741..410418 Shigella boydii Sb227 3779600 YP_406932.1 CDS ybbM NC_007613.1 410378 411184 D Code: R; COG: COG0390; metal resistance protein 410378..411184 Shigella boydii Sb227 3779601 YP_406933.1 CDS ybbO NC_007613.1 412161 412970 R Code: IQR; COG: COG1028; short chain dehydrogenase complement(412161..412970) Shigella boydii Sb227 3779198 YP_406934.1 CDS tesA NC_007613.1 412960 413586 R also functions as protease I; Code: E; COG: COG2755; multifunctional acyl-CoA thioesterase I/protease I/lysophospholipase L1 complement(412960..413586) Shigella boydii Sb227 3779200 YP_406935.1 CDS ybbA NC_007613.1 413554 414240 D Code: Q; COG: COG4181; ABC transporter ATP-binding protein 413554..414240 Shigella boydii Sb227 3779199 YP_406936.1 CDS SBO_0399 NC_007613.1 417077 417379 D hypothetical protein 417077..417379 Shigella boydii Sb227 3779202 YP_406937.1 CDS SBO_0400 NC_007613.1 417237 417641 D protein in rhs element 417237..417641 Shigella boydii Sb227 3779203 YP_406938.1 CDS SBO_0401 NC_007613.1 417819 420836 D Code: M; COG: COG3209; protein in rhs element 417819..420836 Shigella boydii Sb227 3779204 YP_406939.1 CDS insB NC_007613.1 421059 421562 D Code: L; COG: COG1662; IS1 ORF2 421059..421562 Shigella boydii Sb227 3779205 YP_406940.1 CDS SBO_0403 NC_007613.1 421931 422353 D hypothetical protein 421931..422353 Shigella boydii Sb227 3779206 YP_406941.1 CDS SBO_0404 NC_007613.1 422935 423342 R hypothetical protein complement(422935..423342) Shigella boydii Sb227 3779207 YP_406942.1 CDS ybbB NC_007613.1 423422 424516 R catalyzes the selenophosphate-dependent transfer of selenium from selenophosphate for conversion of 2-thiouridine to 2-selenouridine at the wobble position in tRNA; tRNA 2-selenouridine synthase complement(423422..424516) Shigella boydii Sb227 3779208 YP_406943.1 CDS SBO_0406 NC_007613.1 424585 424887 R IS1 encoded protein complement(424585..424887) Shigella boydii Sb227 3779209 YP_406944.1 CDS insB NC_007613.1 424980 425483 D Code: L; COG: COG1662; IS1 ORF2 424980..425483 Shigella boydii Sb227 3779210 YP_406945.1 CDS ybbT NC_007613.1 426517 426999 D catalyzes the formation of glyoxylate from (S)-ureidoglycolate; ureidoglycolate hydrolase 426517..426999 Shigella boydii Sb227 3779212 YP_406946.1 CDS ybbU NC_007613.1 427077 427892 D regulates operons involved in the utilization of allantoin; DNA-binding transcriptional repressor AllR 427077..427892 Shigella boydii Sb227 3779213 YP_406947.1 CDS gcl NC_007613.1 427982 429763 D catalyzes the formation of 2-hydroxy-3-oxopropanoate (tartronate semialdehyde) from two molecules of glyoxylate; glyoxylate carboligase 427982..429763 Shigella boydii Sb227 3779214 YP_406948.1 CDS SBO_0412 NC_007613.1 429876 430055 R IS1 encoded protein complement(429876..430055) Shigella boydii Sb227 3779215 YP_406949.1 CDS insB NC_007613.1 430130 430633 D Code: L; COG: COG1662; IS1 ORF2 430130..430633 Shigella boydii Sb227 3780050 YP_406950.1 CDS folD NC_007613.1 430772 431638 D 5,10-methylene-tetrahydrofolate cyclohydrolase; catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate; bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase 430772..431638 Shigella boydii Sb227 3780051 YP_406951.2 CDS ybcJ NC_007613.1 431640 431852 D Code: S; COG: COG2501; hypothetical protein 431640..431852 Shigella boydii Sb227 3780052 YP_406952.1 CDS ybcI NC_007613.1 431960 432481 D Code: R; COG: COG1988; hypothetical protein 431960..432481 Shigella boydii Sb227 3780053 YP_406953.1 CDS cysS NC_007613.1 432584 433903 R catalyzes a two-step reaction; charges a cysteine by linking its carboxyl group to the alpha-phosphate of ATP then transfers the aminoacyl-adenylate to its tRNA; cysteinyl-tRNA synthetase complement(432584..433903) Shigella boydii Sb227 3780054 YP_406954.1 CDS ppiB NC_007613.1 434077 434571 D rotamase B; Code: O; COG: COG0652; peptidyl-prolyl cis-trans isomerase B 434077..434571 Shigella boydii Sb227 3780055 YP_406955.1 CDS ybbF NC_007613.1 434574 435296 D catalyzes the formation of 2,3=diacylglucosamine 1-phosphate from UDP-2,3=diacylglucosamine; UDP-2,3-diacylglucosamine hydrolase 434574..435296 Shigella boydii Sb227 3780056 YP_406956.1 CDS purE NC_007613.1 435414 435923 D AIR carboxylase, catalytic subunit; Code: F; COG: COG0041; phosphoribosylaminoimidazole carboxylase 435414..435923 Shigella boydii Sb227 3780057 YP_406957.1 CDS purK NC_007613.1 435920 436987 D AIR carboxylase, CO(2)-fixing subunit; With PurE catalyzes the conversion of aminoimidazole ribonucleotide to carboxyaminoimidazole ribonucleotide in the de novo purine nucleotide biosynthetic pathway; phosphoribosylaminoimidazole carboxylase ATPase subunit 435920..436987 Shigella boydii Sb227 3780058 YP_406958.1 CDS ylbF NC_007613.1 438012 438827 R carboxylase complement(438012..438827) Shigella boydii Sb227 3780060 YP_406959.1 CDS ylbE NC_007613.1 438838 439839 R hypothetical protein complement(438838..439839) Shigella boydii Sb227 3780061 YP_406960.2 CDS SBO_0425 NC_007613.1 440999 441904 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(440999..441904) Shigella boydii Sb227 3780062 YP_406961.1 CDS SBO_0426 NC_007613.1 441862 442227 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(441862..442227) Shigella boydii Sb227 3780063 YP_406962.1 CDS insB NC_007613.1 443135 443638 R Code: L; COG: COG1662; IS1 ORF2 complement(443135..443638) Shigella boydii Sb227 3780065 YP_406963.1 CDS fimZ NC_007613.1 443861 444436 R probable signal transducer; activates the production of the major fimbrae protein FimA; transcriptional regulator FimZ complement(443861..444436) Shigella boydii Sb227 3780066 YP_406964.1 CDS SBO_0430 NC_007613.1 444514 444801 D Code: L; COG: COG2963; IS600 ORF1 444514..444801 Shigella boydii Sb227 3780067 YP_406965.1 CDS SBO_0431 NC_007613.1 444956 445687 D Code: L; COG: COG2801; IS600 ORF2 444956..445687 Shigella boydii Sb227 3780068 YP_406966.1 CDS insB NC_007613.1 446677 447180 R Code: L; COG: COG1662; IS1 ORF2 complement(446677..447180) Shigella boydii Sb227 3779180 YP_406967.1 CDS ylcD NC_007613.1 447416 448543 D Code: M; COG: COG0845; resistance protein 447416..448543 Shigella boydii Sb227 3779181 YP_406968.1 CDS ybdE NC_007613.1 448555 451698 D Code: P; COG: COG3696; inner membrane component for iron transport 448555..451698 Shigella boydii Sb227 3779182 YP_406969.1 CDS pheP NC_007613.1 451800 453176 D Code: E; COG: COG1113; phenylalanine transporter 451800..453176 Shigella boydii Sb227 3779183 YP_406970.1 CDS ybdG NC_007613.1 453244 454491 R Code: M; COG: COG0668; transport complement(453244..454491) Shigella boydii Sb227 3779184 YP_406971.1 CDS nfnB NC_007613.1 454599 455252 R catalyzes the reduction of nitroaromatic compounds such as nitrofurazone, quinones and the anti-tumor agent CB1954; NAD(P)H-dependent; oxygen insensitive; dihydropteridine reductase complement(454599..455252) Shigella boydii Sb227 3779185 YP_406972.1 CDS ybdF NC_007613.1 455346 455714 R Code: S; COG: COG2315; hypothetical protein complement(455346..455714) Shigella boydii Sb227 3779186 YP_406973.1 CDS ybdJ NC_007613.1 455779 456027 R hypothetical protein complement(455779..456027) Shigella boydii Sb227 3779187 YP_406974.1 CDS ybdK NC_007613.1 456093 457211 R ATP-dependent; carboxylate-amine ligase with weak glutamate--cysteine ligase activity; carboxylate-amine ligase complement(456093..457211) Shigella boydii Sb227 3779188 YP_406975.1 CDS entD NC_007613.1 457938 458567 R Code: Q; COG: COG2977; enterobactin synthase multienzyme complex phosphopantetheinyltransferase complement(457938..458567) Shigella boydii Sb227 3779189 YP_406976.1 CDS fepA NC_007613.1 458753 460972 R outer membrane receptor for ferric enterobactin (enterochelin) and colicins B and D; Fep; Cbt; Cbr; FeuB; FepA; PfeA; IroN; BfeA; outer membrane receptor of ferric enterobactin and colicins B and D; interacts with the TonB-ExbBD complex which catalyzes the translocation of the siderophore to the periplasmic space; outer membrane receptor FepA complement(458753..460972) Shigella boydii Sb227 3779190 YP_406977.1 CDS fes NC_007613.1 461293 462417 D Code: P; COG: COG2382; enterobactin/ferric enterobactin esterase 461293..462417 Shigella boydii Sb227 3779191 YP_406978.1 CDS ybdZ NC_007613.1 462420 462638 D Code: S; COG: COG3251; hypothetical protein 462420..462638 Shigella boydii Sb227 3779192 YP_406979.1 CDS entF NC_007613.1 462635 466516 D may be part of enterobactin synthase as component F; with EntB, EntD, and EntE forms the multienzyme complex enterobactin synthase; EntF is the serine activating enzyme which catalyzes the formation of the amide and ester bonds of the cyclic enterobactin; enterobactin synthase subunit F 462635..466516 Shigella boydii Sb227 3779193 YP_406980.1 CDS fepE NC_007613.1 466731 467864 D part of the ferric enterobactin transport system; necessary for enetrobactin uptake; ferric enterobactin transport protein FepE 466731..467864 Shigella boydii Sb227 3779194 YP_406981.1 CDS fepC NC_007613.1 467861 468676 R with FepBDE is involved in the transport of ferric enterobactin; iron-enterobactin transporter ATP-binding protein complement(467861..468676) Shigella boydii Sb227 3779195 YP_406982.1 CDS fepG NC_007613.1 468673 469665 R with FepBCD is involved in the transport of ferric enterobactin; iron-enterobactin transporter permease complement(468673..469665) Shigella boydii Sb227 3779196 YP_406983.1 CDS fepD NC_007613.1 469662 470666 R with FepBCG is involved in the transport of ferric enterobactin; iron-enterobactin transporter membrane protein complement(469662..470666) Shigella boydii Sb227 3779482 YP_406984.1 CDS ybdA NC_007613.1 470777 472027 D protein p43; inner membrane protein that exports enterobactin to the periplasmic space; member of the major facilitator superfamily (MFS) of transporters; enterobactin exporter EntS 470777..472027 Shigella boydii Sb227 3779483 YP_406985.1 CDS fepB NC_007613.1 472031 472987 R with FepCDG is involved in the transport of ferric enterobactin; iron-enterobactin transporter periplasmic binding protein complement(472031..472987) Shigella boydii Sb227 3779484 YP_406986.1 CDS entC NC_007613.1 473362 474537 D Code: HQ; COG: COG1169; isochorismate hydroxymutase 473362..474537 Shigella boydii Sb227 3779485 YP_406987.1 CDS entE NC_007613.1 474547 476157 D bifunctional 2,3-dihydroxybenzoate-AMP ligase/S-dihydroxybenzoyltransferase; activates the carboxylate group of 2,3-dihydroxy-benzoate forming (2,3-dihydroxybenzoyl)adenylate then catalyzes the acylation of holo-entB with 2,3-dihydroxy-benzoate adenylate; enterobactin synthase subunit E 474547..476157 Shigella boydii Sb227 3779486 YP_406988.1 CDS entB NC_007613.1 476171 477028 D Code: Q; COG: COG1535; 2,3-dihydro-2,3-dihydroxybenzoate synthetase 476171..477028 Shigella boydii Sb227 3779487 YP_406989.1 CDS entA NC_007613.1 477028 477774 D enterochelin biosynthesis; catalyzes the formation of 2,3-dihydroxybenzoate from 2,3-dihydro-2,3-dihydroxybenzoate; involved in the biosynthesis of siderophores, enterobactin, bacillibactin or vibriobactin; 2,3-dihydroxybenzoate-2,3-dehydrogenase 477028..477774 Shigella boydii Sb227 3779488 YP_406990.1 CDS ybdB NC_007613.1 477777 478190 D Code: Q; COG: COG2050; hypothetical protein 477777..478190 Shigella boydii Sb227 3779489 YP_406991.1 CDS cstA NC_007613.1 478371 480476 D Code: T; COG: COG1966; carbon starvation protein 478371..480476 Shigella boydii Sb227 3779490 YP_406992.1 CDS ybdD NC_007613.1 480658 480855 D Code: S; COG: COG2879; hypothetical protein 480658..480855 Shigella boydii Sb227 3779491 YP_406993.1 CDS ybdH NC_007613.1 480865 481953 R member of the iron-containing alcohol dehydrogenase family; unknown function; hypothetical protein complement(480865..481953) Shigella boydii Sb227 3779492 YP_406994.1 CDS ybdN NC_007613.1 483212 484729 R Code: R; COG: COG3969; hypothetical protein complement(483212..484729) Shigella boydii Sb227 3779494 YP_406995.1 CDS insB NC_007613.1 485274 485777 R Code: L; COG: COG1662; IS1 ORF2 complement(485274..485777) Shigella boydii Sb227 3779495 YP_406996.1 CDS SBO_0465 NC_007613.1 485852 486130 D IS1 encoded protein 485852..486130 Shigella boydii Sb227 3779496 YP_406997.1 CDS insB NC_007613.1 486577 487080 R Code: L; COG: COG1662; IS1 ORF2 complement(486577..487080) Shigella boydii Sb227 3779497 YP_406998.2 CDS SBO_0467 NC_007613.1 487363 488268 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(487363..488268) Shigella boydii Sb227 3779498 YP_406999.1 CDS SBO_0468 NC_007613.1 488226 488591 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(488226..488591) Shigella boydii Sb227 3779499 YP_407000.1 CDS ahpC NC_007613.1 489464 490027 D detoxification of hydroperoxides; with AhpF catalyzes the conversion of alkyl hydroperoxides to their corresponding alcohols; AhpC reduced the hydroperoxide substrate; alkyl hydroperoxide reductase subunit C 489464..490027 Shigella boydii Sb227 3779501 YP_407001.1 CDS ahpF NC_007613.1 490168 491763 D detoxification of hydroperoxides; Code: O; COG: COG3634; alkyl hydroperoxide reductase F52a subunit 490168..491763 Shigella boydii Sb227 3779706 YP_407002.1 CDS ybdQ NC_007613.1 491884 492312 R Code: T; COG: COG0589; hypothetical protein complement(491884..492312) Shigella boydii Sb227 3779707 YP_407003.1 CDS ybdR NC_007613.1 492533 493771 D Code: ER; COG: COG1063; oxidoreductase 492533..493771 Shigella boydii Sb227 3779708 YP_407004.1 CDS SBO_0474 NC_007613.1 493852 494313 D hypothetical protein 493852..494313 Shigella boydii Sb227 3779709 YP_407005.1 CDS rnk NC_007613.1 494002 494412 R Regulates the synthesis of nucleoside triphosphates for nucleic acid synthesis, CTP for lipid synthesis, and GTP for protein elongation; nucleoside diphosphate kinase regulator complement(494002..494412) Shigella boydii Sb227 3779710 YP_407006.1 CDS rna NC_007613.1 494642 495448 R cleaves phosphodiester bond between any two nucleotides; Code: J; COG: COG3719; ribonuclease I complement(494642..495448) Shigella boydii Sb227 3779711 YP_407007.1 CDS ybdS NC_007613.1 495559 497022 R Code: P; COG: COG0471; membrane protein complement(495559..497022) Shigella boydii Sb227 3779712 YP_407008.1 CDS citG NC_007613.1 497102 497950 R catalyzes the formation of 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA from ATP and 3-dephospho-CoA; triphosphoribosyl-dephospho-CoA synthase complement(497102..497950) Shigella boydii Sb227 3779713 YP_407009.1 CDS citX NC_007613.1 497987 498475 R 2'-(5''-phosphoribosyl)-3'-dephospho-CoA transferase; holo-citrate lyase synthase; CitG forms the prosthetic group precursor 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA which is then transferred to apo-ACP by CitX to produce holo-ACP and pyrophosphate; 2-(5''-triphosphoribosyl)-3'-dephosphocoenzyme-A synthase complement(497987..498475) Shigella boydii Sb227 3779714 YP_407010.1 CDS citF NC_007613.1 498479 500011 R Code: C; COG: COG3051; citrate lyase subunit alpha complement(498479..500011) Shigella boydii Sb227 3779715 YP_407011.1 CDS citE NC_007613.1 500022 500945 R Code: G; COG: COG2301; citrate lyase subunit beta complement(500022..500945) Shigella boydii Sb227 3779716 YP_407012.1 CDS citD NC_007613.1 500927 501223 R acyl carrier protein; with CitE and CitF catalyzes the formation of oxaloacetate from citrate; citrate lyase subunit gamma complement(500927..501223) Shigella boydii Sb227 3779717 YP_407013.1 CDS citC NC_007613.1 501238 502383 R citrate (pro-3S)-lyase ligase; Code: C; COG: COG3053; citrate lyase synthetase complement(501238..502383) Shigella boydii Sb227 3779718 YP_407014.1 CDS dpiA NC_007613.1 504271 504951 D similar to Shigella regulator; regulates the expression of citAB in citrate fermentation; two-component response regulator DpiA 504271..504951 Shigella boydii Sb227 3779720 YP_407015.1 CDS dcuC NC_007613.1 504992 506377 R responsible for the transport of C4-dicarboxylates during anaerobic growth; C4-dicarboxylate transporter DcuC complement(504992..506377) Shigella boydii Sb227 3779721 YP_407016.1 CDS pagP NC_007613.1 506965 507525 D catalyzes the transfer of palmitate to lipid A; palmitoyl transferase 506965..507525 Shigella boydii Sb227 3779722 YP_407017.1 CDS cspE NC_007613.1 507700 507909 D member of the CspA family; constitutively expressed RNA/ssDNA-binding protein; functions in helping cells adapt to low temperature; aids nucleic acid melting; participates in gene regulation; can act as a transcription antiterminator; cold shock protein CspE 507700..507909 Shigella boydii Sb227 3779723 YP_407018.1 CDS crcB NC_007613.1 507964 508347 R may be involved in chromosome condensation; overexpression in Escherichia coli protects against decondensation by camphor; overexpressing the protein results in an increase in supercoiling; camphor resistance protein CrcB complement(507964..508347) Shigella boydii Sb227 3779724 YP_407019.1 CDS ybeM NC_007613.1 508665 509228 D Code: R; COG: COG0388; amidase 508665..509228 Shigella boydii Sb227 3779216 YP_407020.1 CDS tatE NC_007613.1 509357 509560 D TatE; similar to TatA and found in some proteobacteria; part of system that translocates proteins with a conserved twin arginine motif across the inner membrane; capable of translocating folded substrates typically those with bound cofactors; similar to a protein import system in thylakoid membranes; twin arginine translocase protein E 509357..509560 Shigella boydii Sb227 3779217 YP_407021.1 CDS lipA NC_007613.1 509661 510626 R sulfur insertion?; catalyzes the radical-mediated insertion of two sulfur atoms into an acyl carrier protein (ACP) bound to an octanoyl group to produce a lipoyl group; lipoyl synthase complement(509661..510626) Shigella boydii Sb227 3779218 YP_407022.1 CDS ybeF NC_007613.1 510835 511635 R Code: K; COG: COG0583; DNA-binding transcriptional regulator complement(510835..511635) Shigella boydii Sb227 3779219 YP_407023.2 CDS lipB NC_007613.1 512047 512688 R lipoyl/octanoyltransferase; catalyzes the transfer of the lipoyl/octanoyl moiety of lipoyl/octanoyl-ACP onto lipoate-dependent enzymes like pyruvate dehydrogenase and the glycine cleavage system H protein; lipoate-protein ligase B complement(512047..512688) Shigella boydii Sb227 3779220 YP_407024.1 CDS ybeD NC_007613.1 512789 513052 R Code: S; COG: COG2921; hypothetical protein complement(512789..513052) Shigella boydii Sb227 3779221 YP_407025.1 CDS dacA NC_007613.1 513163 514374 R penicillin-binding protein 5; penicillin-binding protein 5; removes C-terminal D-alanyl residues from sugar-peptide cell wall precursors; D-alanyl-D-alanine carboxypeptidase complement(513163..514374) Shigella boydii Sb227 3779222 YP_407026.1 CDS rlpA NC_007613.1 514514 515602 R a minor lipoprotein; Code: M; COG: COG0797; rare lipoprotein A complement(514514..515602) Shigella boydii Sb227 3779223 YP_407027.1 CDS mrdB NC_007613.1 515613 516725 R sensitivity to radiation and drugs; Code: D; COG: COG0772; cell wall shape-determining protein complement(515613..516725) Shigella boydii Sb227 3779224 YP_407028.1 CDS mrdA NC_007613.1 516728 518629 R peptidoglycan synthetase; penicillin-binding protein 2; Code: M; COG: COG0768; penicillin-binding protein 2 complement(516728..518629) Shigella boydii Sb227 3779225 YP_407029.1 CDS ybeA NC_007613.1 518660 519127 R SPOUT methyltransferase family protein; crystal structure shows homodimer; in Escherichia coli this protein methylates pseudouridine at position 1915 of the 23S ribosomal RNA; rRNA large subunit methyltransferase complement(518660..519127) Shigella boydii Sb227 3779226 YP_407030.1 CDS ybeB NC_007613.1 519131 519340 R Code: S; COG: COG0799; hypothetical protein complement(519131..519340) Shigella boydii Sb227 3779227 YP_407031.1 CDS nadD NC_007613.1 520342 520983 R transfers an adenyl group from ATP to NaMN to form nicotinic acid adenine dinucleotide (NaAD) which is then converted to the ubiquitous compound NAD by NAD synthetase; essential enzyme in bacteria; nicotinic acid mononucleotide adenylyltransferase complement(520342..520983) Shigella boydii Sb227 3779229 YP_407032.1 CDS holA NC_007613.1 520985 522016 R required for the assembly and function of the DNAX complex which is required for the assembly of the beta subunit onto primed DNA; DNA polymerase III subunit delta complement(520985..522016) Shigella boydii Sb227 3779230 YP_407033.1 CDS rlpB NC_007613.1 522016 522597 R a minor lipoprotein; rare lipoprotein B; involved in the assembly of LPS in the outer membrane; LPS-assembly lipoprotein RlpB complement(522016..522597) Shigella boydii Sb227 3779231 YP_407034.1 CDS leuS NC_007613.1 522612 525194 R leucine--tRNA ligase; LeuRS; class-I aminoacyl-tRNA synthetase; charges leucine by linking carboxyl group to alpha-phosphate of ATP and then transfers aminoacyl-adenylate to its tRNA; due to the large number of codons that tRNA(Leu) recognizes, the leucyl-tRNA synthetase does not recognize the anticodon loop of the tRNA, but instead recognition is dependent on a conserved discriminator base A37 and a long arm; an editing domain hydrolyzes misformed products; in Methanothermobacter thermautotrophicus this enzyme associates with prolyl-tRNA synthetase; leucyl-tRNA synthetase complement(522612..525194) Shigella boydii Sb227 3779232 YP_407035.1 CDS ybeL NC_007613.1 525429 525911 D hypothetical protein 525429..525911 Shigella boydii Sb227 3779233 YP_407036.1 CDS ybeQ NC_007613.1 525981 526964 R Code: R; COG: COG0790; hypothetical protein complement(525981..526964) Shigella boydii Sb227 3779234 YP_407037.1 CDS ybeR NC_007613.1 527121 527828 D hypothetical protein 527121..527828 Shigella boydii Sb227 3779235 YP_407038.1 CDS ybeS NC_007613.1 527825 529252 D enzyme of polynucleotide modification 527825..529252 Shigella boydii Sb227 3779141 YP_407039.1 CDS SBO_0512 NC_007613.1 529677 530516 R Code: L; COG: COG2801; IS911 ORF2 complement(529677..530516) Shigella boydii Sb227 3779143 YP_407040.1 CDS ybeW NC_007613.1 531014 532684 R Code: O; COG: COG0443; dnaK protein complement(531014..532684) Shigella boydii Sb227 3779144 YP_407041.1 CDS rihA NC_007613.1 532768 533703 R Hydrolyzes with equal efficiency cytidine or uridine to ribose and cytosine or uracil, respectively; pyrimidine-specific; ribonucleoside hydrolase 1 complement(532768..533703) Shigella boydii Sb227 3779145 YP_407042.1 CDS gltL NC_007613.1 533821 534546 R Code: E; COG: COG1126; glutamate-aspartate ABC transporter ATP-binding protein complement(533821..534546) Shigella boydii Sb227 3779146 YP_407043.1 CDS gltK NC_007613.1 534546 535220 R Code: E; COG: COG0765; glutamate-aspartate transport system permease complement(534546..535220) Shigella boydii Sb227 3779147 YP_407044.1 CDS gltJ NC_007613.1 535220 535960 R Code: E; COG: COG0765; glutamate-aspartate transport system permease complement(535220..535960) Shigella boydii Sb227 3779148 YP_407045.1 CDS ybeJ NC_007613.1 536130 537038 R Code: ET; COG: COG0834; glutamate and aspartate transporter subunit complement(536130..537038) Shigella boydii Sb227 3779149 YP_407046.1 CDS SBO_0519 NC_007613.1 537493 539259 D hypothetical protein 537493..539259 Shigella boydii Sb227 3779150 YP_407047.1 CDS insB NC_007613.1 539487 539990 D Code: L; COG: COG1662; IS1 ORF2 539487..539990 Shigella boydii Sb227 3779151 YP_407048.1 CDS lnt NC_007613.1 540224 541762 R copper homeostasis protein, inner membrane; Transfers the fatty acyl group on membrane lipoproteins; apolipoprotein N-acyltransferase complement(540224..541762) Shigella boydii Sb227 3779152 YP_407049.1 CDS ybeX NC_007613.1 541787 542665 R Code: P; COG: COG4535; transporter complement(541787..542665) Shigella boydii Sb227 3779153 YP_407050.1 CDS ybeY NC_007613.1 542755 543222 R Code: R; COG: COG0319; metalloprotease complement(542755..543222) Shigella boydii Sb227 3779154 YP_407051.1 CDS ybeZ NC_007613.1 543219 544298 R Code: T; COG: COG1702; ATP-binding protein in pho regulon complement(543219..544298) Shigella boydii Sb227 3779155 YP_407052.1 CDS yleA NC_007613.1 544412 545836 R catalyzes the formation of 2-methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine from N6-(dimethylallyl)adenosine (i(6)A); (dimethylallyl)adenosine tRNA methylthiotransferase complement(544412..545836) Shigella boydii Sb227 3779156 YP_407053.1 CDS ubiF NC_007613.1 545982 547157 D catalyzes the formation of 2-octaprenyl-3-methyl-5-hydroxy-6-methoxy-1,4-benzoquinol from 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol; functions in the biosynthesis of ubiquinone or coenzyme Q; 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase 545982..547157 Shigella boydii Sb227 3779157 YP_407056.1 CDS asnB NC_007613.1 548395 550059 R functions in asparagine biosynthesis; converts glutamine, aspartate, ATP, and water to glutamate, asparagine, pyrophosphate and AMP; asparagine synthetase B complement(548395..550059) Shigella boydii Sb227 3779528 YP_407057.1 CDS nagD NC_007613.1 550456 551208 R Code: G; COG: COG0647; UMP phosphatase complement(550456..551208) Shigella boydii Sb227 3779529 YP_407058.1 CDS nagC NC_007613.1 551256 552476 R transcriptional repressor of N-acetylglucosamine operon; Code: KG; COG: COG1940; transcriptional repressor of nag operon complement(551256..552476) Shigella boydii Sb227 3779530 YP_407059.1 CDS nagA NC_007613.1 552485 553633 R catalyzes the formation of glucosamine 6-phosphate from N-acetylglucosamine 6-phosphate; N-acetylglucosamine-6-phosphate deacetylase complement(552485..553633) Shigella boydii Sb227 3779531 YP_407060.1 CDS nagB NC_007613.1 553693 554493 R catalyzes the reversible formation of fructose 6-phosphate from glucosamine 6-phosphate; glucosamine-6-phosphate deaminase complement(553693..554493) Shigella boydii Sb227 3779532 YP_407061.1 CDS nagE NC_007613.1 554826 556772 D phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system N-acetyl glucosamine specific transporter subunit IIABC 554826..556772 Shigella boydii Sb227 3779366 YP_407062.1 CDS glnS NC_007613.1 556975 558639 D catalyzes a two-step reaction, first charging a glutamine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; glutaminyl-tRNA synthetase 556975..558639 Shigella boydii Sb227 3779367 YP_407063.1 CDS ybfN NC_007613.1 560674 561000 D hypothetical protein 560674..561000 Shigella boydii Sb227 3779369 YP_407064.1 CDS fur NC_007613.1 561085 561531 R negatively regulates a number of operons that encode enzymes involved in iron transport; activated by manganese; forms a homodimer; ferric uptake regulator complement(561085..561531) Shigella boydii Sb227 3779370 YP_407065.1 CDS fldA NC_007613.1 561820 562350 R An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic group; flavodoxin FldA complement(561820..562350) Shigella boydii Sb227 3779371 YP_407066.1 CDS ybfE NC_007613.1 562490 562852 R LexA regulated protein complement(562490..562852) Shigella boydii Sb227 3779372 YP_407067.1 CDS ybfF NC_007613.1 562923 563687 R Code: R; COG: COG0596; hypothetical protein complement(562923..563687) Shigella boydii Sb227 3779373 YP_407068.1 CDS seqA NC_007613.1 563873 564418 D negative modulator of the initiation of chromosome replication; replication initiation regulator SeqA 563873..564418 Shigella boydii Sb227 3779374 YP_407069.1 CDS pgm NC_007613.1 564444 566084 D catalyzes the interconversion of alpha-D-glucose 1-phosphate to alpha-D-glucose 6-phosphate; phosphoglucomutase 564444..566084 Shigella boydii Sb227 3779375 YP_407070.1 CDS ybfP NC_007613.1 566299 566793 D pectinase 566299..566793 Shigella boydii Sb227 3779376 YP_407071.2 CDS ybfG NC_007613.1 566834 567244 R hypothetical protein complement(566834..567244) Shigella boydii Sb227 3779377 YP_407072.1 CDS speF NC_007613.1 569168 571366 R Code: E; COG: COG1982; ornithine decarboxylase complement(569168..571366) Shigella boydii Sb227 3779379 YP_407073.1 CDS ybfK NC_007613.1 571489 571746 D hypothetical protein 571489..571746 Shigella boydii Sb227 3779380 YP_407074.1 CDS kdpE NC_007613.1 571962 572639 R transcriptional effector; response regulator in two-component regulatory system with KdpD; regulates the kdp operon involved in potassium transport; DNA-binding transcriptional activator KdpE complement(571962..572639) Shigella boydii Sb227 3779381 YP_407075.1 CDS kdpD NC_007613.1 572636 575320 R sensory histidine kinase in two-component regulatory system with KdpE; signal sensing protein; sensor protein KdpD complement(572636..575320) Shigella boydii Sb227 3779382 YP_407076.1 CDS kdpB NC_007613.1 575865 577913 R One of the components of the high-affinity ATP-driven potassium transport (or KDP) system, which catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions; potassium-transporting ATPase subunit B complement(575865..577913) Shigella boydii Sb227 3779384 YP_407077.1 CDS kdpA NC_007613.1 577936 579609 R catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions; potassium-transporting ATPase subunit A complement(577936..579609) Shigella boydii Sb227 3779385 YP_407078.1 CDS kdpF NC_007613.1 579609 579698 R one of the components of the high-affinity ATP-driven potassium transport (or KDP) system, which catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions; potassium-transporting ATPase subunit F complement(579609..579698) Shigella boydii Sb227 3779783 YP_407079.1 CDS ybfA NC_007613.1 580011 580217 D hypothetical protein 580011..580217 Shigella boydii Sb227 3779784 YP_407080.1 CDS rhsC NC_007613.1 580457 584608 D Code: M; COG: COG3209; rhsC protein in rhs element 580457..584608 Shigella boydii Sb227 3779785 YP_407081.1 CDS SBO_0564 NC_007613.1 584587 585108 D hypothetical protein 584587..585108 Shigella boydii Sb227 3779786 YP_407082.1 CDS insB NC_007613.1 585433 585936 D Code: L; COG: COG1662; IS1 ORF2 585433..585936 Shigella boydii Sb227 3779787 YP_407083.1 CDS ybgA NC_007613.1 587054 587563 D Code: S; COG: COG3272; hypothetical protein 587054..587563 Shigella boydii Sb227 3779788 YP_407084.1 CDS phrB NC_007613.1 587560 588978 D photoreactivation; UV-induced DNA repair; converts cyclobutane-type pyrimidine dimers created during exposure to UV ratiation to monomers; light dependent; deoxyribodipyrimidine photolyase 587560..588978 Shigella boydii Sb227 3779789 YP_407085.1 CDS ybgH NC_007613.1 589020 590501 R Code: E; COG: COG3104; transporter complement(589020..590501) Shigella boydii Sb227 3779790 YP_407086.1 CDS ybgI NC_007613.1 590772 591515 D Code: S; COG: COG0327; hydrolase-oxidase 590772..591515 Shigella boydii Sb227 3779791 YP_407087.1 CDS ybgJ NC_007613.1 591538 592194 D Code: E; COG: COG2049; carboxylase 591538..592194 Shigella boydii Sb227 3779792 YP_407088.1 CDS ybgK NC_007613.1 592188 593120 D Code: E; COG: COG1984; carboxylase 592188..593120 Shigella boydii Sb227 3779793 YP_407089.1 CDS ybgL NC_007613.1 593110 593844 D Code: R; COG: COG1540; LamB/YcsF family protein 593110..593844 Shigella boydii Sb227 3779794 YP_407090.1 CDS nei NC_007613.1 593880 594671 D 5-formyluracil/5-hydroxymethyluracil DNA glycosylase; involved in base excision repair of DNA damaged by oxidation or by mutagenic agents; acts as DNA glycosylase that recognizes and removes damaged bases with a preference for oxidized pyrimidines; has apurinic/apyrimidinic lyase activity; endonuclease VIII 593880..594671 Shigella boydii Sb227 3779795 YP_407091.1 CDS abrB NC_007613.1 594668 595759 R Code: R; COG: COG3180; transporter complement(594668..595759) Shigella boydii Sb227 3779796 YP_407092.1 CDS insB NC_007613.1 596121 596624 R Code: L; COG: COG1662; IS1 ORF2 complement(596121..596624) Shigella boydii Sb227 3779798 YP_407093.1 CDS SBO_0577 NC_007613.1 596699 596881 D IS1 encoded protein 596699..596881 Shigella boydii Sb227 3779799 YP_407094.1 CDS gltA NC_007613.1 596999 598282 R type II enzyme; in Escherichia coli this enzyme forms a trimer of dimers which is allosterically inhibited by NADH and competitively inhibited by alpha-ketoglutarate; allosteric inhibition is lost when Cys206 is chemically modified which also affects hexamer formation; forms oxaloacetate and acetyl-CoA and water from citrate and coenzyme A; functions in TCA cycle, glyoxylate cycle and respiration; enzyme from Helicobacter pylori is not inhibited by NADH; type II citrate synthase complement(596999..598282) Shigella boydii Sb227 3779800 YP_407095.1 CDS sdhC NC_007613.1 598991 599380 D cytochrome b556; Code: C; COG: COG2009; succinate dehydrogenase cytochrome b556 large membrane subunit 598991..599380 Shigella boydii Sb227 3779801 YP_407096.1 CDS sdhD NC_007613.1 599374 599721 D Code: C; COG: COG2142; succinate dehydrogenase cytochrome b556 small membrane subunit 599374..599721 Shigella boydii Sb227 3779840 YP_407097.1 CDS sdhA NC_007613.1 599721 601487 D part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol; succinate dehydrogenase flavoprotein subunit 599721..601487 Shigella boydii Sb227 3779841 YP_407098.1 CDS sdhB NC_007613.1 601503 602219 D part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol; the catalytic subunits are similar to fumarate reductase; succinate dehydrogenase iron-sulfur subunit 601503..602219 Shigella boydii Sb227 3779842 YP_407099.1 CDS SBO_0583 NC_007613.1 602278 602538 D hypothetical protein 602278..602538 Shigella boydii Sb227 3779843 YP_407100.1 CDS sucA NC_007613.1 602520 605321 D SucA; E1 component of the oxoglutarate dehydrogenase complex which catalyzes the formation of succinyl-CoA from 2-oxoglutarate; SucA catalyzes the reaction of 2-oxoglutarate with dihydrolipoamide succinyltransferase-lipoate to form dihydrolipoamide succinyltransferase-succinyldihydrolipoate and carbon dioxide; 2-oxoglutarate dehydrogenase E1 component 602520..605321 Shigella boydii Sb227 3779844 YP_407101.1 CDS sucB NC_007613.1 605336 606553 D component of 2-oxoglutarate dehydrogenase complex; catalyzes the transfer of succinyl coenzyme A to form succinyl CoA as part of the conversion of 2-oxoglutarate to succinyl-CoA; dihydrolipoamide succinyltransferase 605336..606553 Shigella boydii Sb227 3779845 YP_407102.1 CDS sucC NC_007613.1 606829 607995 D catalyzes the interconversion of succinyl-CoA and succinate; succinyl-CoA synthetase subunit beta 606829..607995 Shigella boydii Sb227 3779846 YP_407103.1 CDS sucD NC_007613.1 607995 608864 D Catalyzes the only substrate-level phosphorylation in the TCA cycle; succinyl-CoA synthetase subunit alpha 607995..608864 Shigella boydii Sb227 3779847 YP_407104.1 CDS farR NC_007613.1 608968 609690 R regulates the succiny-lCoA synthetase operon; DNA-binding transcriptional repressor MngR complement(608968..609690) Shigella boydii Sb227 3779848 YP_407105.1 CDS hrsA NC_007613.1 609799 611775 D induction of ompC; involved in the phosphorylation and transport of sugars across the cell membrane; protein IIA transfers a phosphoryl group to IIB which then transfers the phosphoryl group to the sugar; IIC forms the translocation channel for the sugar uptake; PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC 609799..611775 Shigella boydii Sb227 3779849 YP_407106.1 CDS insB NC_007613.1 613375 613878 R Code: L; COG: COG1662; IS1 ORF2 complement(613375..613878) Shigella boydii Sb227 3779851 YP_407107.1 CDS cydA NC_007613.1 616048 617619 D Code: C; COG: COG1271; cytochrome d terminal oxidase, polypeptide subunit I 616048..617619 Shigella boydii Sb227 3779852 YP_407108.1 CDS cydB NC_007613.1 617635 618774 D Code: C; COG: COG1294; cytochrome d terminal oxidase polypeptide subunit II 617635..618774 Shigella boydii Sb227 3779853 YP_407109.1 CDS ybgE NC_007613.1 618902 619195 D Code: S; COG: COG3790; hypothetical protein 618902..619195 Shigella boydii Sb227 3779854 YP_407110.1 CDS ybgC NC_007613.1 619345 619749 D catalyzes the hydrolysis of short chain aliphatic acyl-CoA thioesters; physiological role remains unknown; involved in phospholipid metabolism; part of the Tol/Pal system of proteins that are critical for maintaining the integrity of the cell envelope components; acyl-CoA thioester hydrolase YbgC 619345..619749 Shigella boydii Sb227 3779855 YP_407111.1 CDS tolQ NC_007613.1 619746 620438 D inner membrane protein, membrane-spanning, maintains integrity of cell envelope; tolerance to group A colicins; membrane spanning protein in TolA-TolQ-TolR complex; involved in the tonB-independent uptake of group A colicins; colicin uptake protein TolQ 619746..620438 Shigella boydii Sb227 3779856 YP_407112.1 CDS tolR NC_007613.1 620442 620870 D inner membrane protein, involved in the tonB-independent uptake of group A colicins; membrane spanning protein in TolA-TolQ-TolR complex; involved in the tonB-independent uptake of group A colicins; colicin uptake protein TolR 620442..620870 Shigella boydii Sb227 3779857 YP_407113.1 CDS tolA NC_007613.1 620935 622176 D membrane spanning protein, required for outer membrane integrity; inner membrane component of 7 member Tol-Pal envelope-spanning complex; involved in maintaining cell envelope integrity; utilized by colicins and filamentous phages for import; interacts with TolB, Pal, and through TolB to various outer membrane porins; cell envelope integrity inner membrane protein TolA 620935..622176 Shigella boydii Sb227 3779858 YP_407114.1 CDS tolB NC_007613.1 622309 623601 D periplasmic protein involved in the tonb-independent uptake of group A colicins; forms dimers; may be involved in cell envelope integrity; interacts with outer membrane proteins and with the C-terminal domain of inner membrane protein TolA; translocation protein TolB 622309..623601 Shigella boydii Sb227 3779859 YP_407115.1 CDS pal NC_007613.1 623636 624157 D Code: M; COG: COG2885; peptidoglycan-associated outer membrane lipoprotein 623636..624157 Shigella boydii Sb227 3779860 YP_407116.1 CDS ybgF NC_007613.1 624167 624958 D periplasmic protein that interacts with TolA; the tol-pal system is probably involved in maintaining cell envelope integrity; tol-pal system protein YbgF 624167..624958 Shigella boydii Sb227 3779861 YP_407117.1 CDS nadA NC_007613.1 625737 626780 D 3 different subfamilies; catalyzes the formation of quinolinate from iminoaspartate and dihydroxyacetone phosphate; quinolinate synthetase 625737..626780 Shigella boydii Sb227 3779865 YP_407118.1 CDS pnuC NC_007613.1 626818 627537 D required for NMN transport; Code: H; COG: COG3201; protein PnuC 626818..627537 Shigella boydii Sb227 3779866 YP_407119.1 CDS ybgR NC_007613.1 627534 628475 R involved in zinc efflux across the cytoplasmic membrane; zinc transporter ZitB complement(627534..628475) Shigella boydii Sb227 3779867 YP_407120.1 CDS SBO_0608 NC_007613.1 628589 628969 R homeobox protein complement(628589..628969) Shigella boydii Sb227 3779868 YP_407121.1 CDS aroG NC_007613.1 629285 630337 D DAHP synthetase, phenylalanine repressible; catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7 phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate, phenylalanine sensitive; phospho-2-dehydro-3-deoxyheptonate aldolase 629285..630337 Shigella boydii Sb227 3779869 YP_407122.1 CDS gpmA NC_007613.1 630495 631247 R 2,3-bisphosphoglycerate-dependent; catalyzes the interconversion of 2-phosphoglycerate to 3-phosphoglycerate; phosphoglyceromutase complement(630495..631247) Shigella boydii Sb227 3779870 YP_407123.1 CDS galM NC_007613.1 631449 632489 R mutarotase; catalyzes the conversion of alpha-aldose to the beta-anomer; active on D-glucose, L-arabinose, D-xylose, D-galactose, maltose and lactose; links the metabolism of lactose and galactose; aldose 1-epimerase complement(631449..632489) Shigella boydii Sb227 3779871 YP_407124.1 CDS galK NC_007613.1 632483 633631 R catalyzes the formation of alpha-D-galactose 1-phosphate from D-galactose in galactose metabolism; galactokinase complement(632483..633631) Shigella boydii Sb227 3779872 YP_407125.1 CDS galT NC_007613.1 633635 634681 R catalyzes the interconversion of UDP-galactose and galactose-1-P with UDP-galactose and glucose-1-P; galactose-1-phosphate uridylyltransferase complement(633635..634681) Shigella boydii Sb227 3779873 YP_407126.1 CDS galE NC_007613.1 634691 635707 R Code: M; COG: COG1087; UDP-galactose-4-epimerase complement(634691..635707) Shigella boydii Sb227 3779874 YP_407127.1 CDS modF NC_007613.1 635968 637440 R contains 2 ATP-binding cassettes; involved in the transport of molybdenum; molybdenum transport ATP-binding protein ModF complement(635968..637440) Shigella boydii Sb227 3779875 YP_407128.1 CDS modE NC_007613.1 637508 638296 R represses the modABCD operon and activates the moaABCD and napFDAGHBC operons; DNA-binding transcriptional regulator ModE complement(637508..638296) Shigella boydii Sb227 3779614 YP_407129.1 CDS SBO_0617 NC_007613.1 638425 638574 D hypothetical protein 638425..638574 Shigella boydii Sb227 3779615 YP_407130.1 CDS modA NC_007613.1 638740 639513 D permease; with ModCB is involved in the high-affinity transport of molybdate; molybdate transporter periplasmic protein 638740..639513 Shigella boydii Sb227 3779616 YP_407131.1 CDS modB NC_007613.1 639513 640202 D part of ModCBA molybdate transporter; member of ABC superfamily; inner membrane component; regulated by repressor protein ModE; molybdate ABC transporter permease 639513..640202 Shigella boydii Sb227 3779617 YP_407132.1 CDS modC NC_007613.1 640205 641263 D Part of the ABC transporter complex modABC involved in molybdenum import; molybdate transporter ATP-binding protein 640205..641263 Shigella boydii Sb227 3779618 YP_407133.1 CDS ybhA NC_007613.1 641264 642082 R YbhA; catalyzes the dephosphorylation of pyridoxal phosphate, fructose 1,6-bisphosphate, erythrose 4-phosphate and p-nitrophenyl phosphate; purine and pyrimidine nucleotides are secondary substrates; phosphotransferase activity observed when using monophosphates as phosphate donor; member of the haloacid dehalogenase-like hydrolases superfamily; phosphotransferase complement(641264..642082) Shigella boydii Sb227 3779619 YP_407134.1 CDS SBO_0622 NC_007613.1 642934 643755 R Code: L; COG: COG2801; IS911 ORF2 complement(642934..643755) Shigella boydii Sb227 3779620 YP_407135.1 CDS SBO_0623 NC_007613.1 643877 644152 D Code: L; COG: COG2963; IS629 ORF1 643877..644152 Shigella boydii Sb227 3779621 YP_407136.1 CDS SBO_0624 NC_007613.1 644152 645039 D Code: L; COG: COG2801; IS629 ORF2 644152..645039 Shigella boydii Sb227 3779622 YP_407137.1 CDS insB NC_007613.1 645839 646342 R Code: L; COG: COG1662; IS1 ORF2 complement(645839..646342) Shigella boydii Sb227 3779623 YP_407138.1 CDS SBO_0626 NC_007613.1 646417 646647 D IS1 encoded protein 646417..646647 Shigella boydii Sb227 3779624 YP_407139.1 CDS SBO_0631 NC_007613.1 647733 648020 D Code: L; COG: COG2963; IS600 ORF1 647733..648020 Shigella boydii Sb227 3779023 YP_407140.1 CDS SBO_0632 NC_007613.1 648196 649083 R Code: L; COG: COG2801; IS629 ORF2 complement(648196..649083) Shigella boydii Sb227 3779024 YP_407141.1 CDS SBO_0633 NC_007613.1 649083 649358 R Code: L; COG: COG2963; IS629 ORF1 complement(649083..649358) Shigella boydii Sb227 3779025 YP_407142.1 CDS SBO_0634 NC_007613.1 649520 649729 D IS911 ORF2 649520..649729 Shigella boydii Sb227 3779026 YP_407143.1 CDS insB NC_007613.1 649723 650226 R Code: L; COG: COG1662; IS1 ORF2 complement(649723..650226) Shigella boydii Sb227 3779027 YP_407144.1 CDS SBO_0636 NC_007613.1 650319 650609 D IS1 encoded protein 650319..650609 Shigella boydii Sb227 3779028 YP_407145.1 CDS SBO_0637 NC_007613.1 650800 651513 R Code: L; COG: COG2801; IS600 ORF2 complement(650800..651513) Shigella boydii Sb227 3779029 YP_407146.1 CDS SBO_0638 NC_007613.1 651643 651918 D Code: L; COG: COG2963; IS629 ORF1 651643..651918 Shigella boydii Sb227 3779030 YP_407147.1 CDS SBO_0639 NC_007613.1 651918 652805 D Code: L; COG: COG2801; IS629 ORF2 651918..652805 Shigella boydii Sb227 3779031 YP_407148.1 CDS SBO_0640 NC_007613.1 652860 653858 D Code: M; COG: COG0741; transglycosylase 652860..653858 Shigella boydii Sb227 3779032 YP_407149.1 CDS SBO_0641 NC_007613.1 653855 654565 D hypothetical protein 653855..654565 Shigella boydii Sb227 3779033 YP_407150.1 CDS SBO_0642 NC_007613.1 655391 655741 D Code: L; COG: COG3436; protein encoded within IS 655391..655741 Shigella boydii Sb227 3779034 YP_407151.1 CDS SBO_0643 NC_007613.1 655961 656299 D protein encoded within IS 655961..656299 Shigella boydii Sb227 3779035 YP_407152.1 CDS SBO_0644 NC_007613.1 656369 657364 D Code: L; COG: COG3436; protein encoded within IS 656369..657364 Shigella boydii Sb227 3779036 YP_407153.1 CDS SBO_0645 NC_007613.1 657351 658073 R Code: L; COG: COG2801; IS2 ORF2 complement(657351..658073) Shigella boydii Sb227 3779037 YP_407154.1 CDS SBO_0646 NC_007613.1 658097 658462 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(658097..658462) Shigella boydii Sb227 3779038 YP_407155.1 CDS SBO_0647 NC_007613.1 658865 660250 D tail fiber protein 658865..660250 Shigella boydii Sb227 3779039 YP_407156.1 CDS SBO_0648 NC_007613.1 660253 660798 D tail fiber assembly protein 660253..660798 Shigella boydii Sb227 3779040 YP_407157.1 CDS SBO_0649 NC_007613.1 661109 661822 R Code: L; COG: COG2801; IS600 ORF2 complement(661109..661822) Shigella boydii Sb227 3779041 YP_407158.1 CDS SBO_0650 NC_007613.1 661963 662265 R Code: L; COG: COG2963; IS600 ORF1 complement(661963..662265) Shigella boydii Sb227 3779042 YP_407159.1 CDS SBO_0651 NC_007613.1 662419 663378 D phage tail fiber protein 662419..663378 Shigella boydii Sb227 3779896 YP_407160.1 CDS SBO_0652 NC_007613.1 663455 663832 D prophage tail protein 663455..663832 Shigella boydii Sb227 3779897 YP_407161.1 CDS ipaH_1 NC_007613.1 664012 665838 R Code: S; COG: COG4886; invasion plasmid antigen complement(664012..665838) Shigella boydii Sb227 3779898 YP_407162.1 CDS ybhE NC_007613.1 666719 667714 D catalyzes the hydrolysis of 6-phosphogluconolactone to 6-phosphogluconate; 6-phosphogluconolactonase 666719..667714 Shigella boydii Sb227 3779899 YP_407163.1 CDS SBO_0656 NC_007613.1 668823 669038 R IS1 encoded protein complement(668823..669038) Shigella boydii Sb227 3779901 YP_407164.1 CDS insB NC_007613.1 669113 669616 D Code: L; COG: COG1662; IS1 ORF2 669113..669616 Shigella boydii Sb227 3779902 YP_407165.1 CDS ybhJ NC_007613.1 669642 671879 D Code: C; COG: COG1048; hypothetical protein 669642..671879 Shigella boydii Sb227 3779903 YP_407166.1 CDS ybhC NC_007613.1 672020 673303 R outer membrane lipoprotein that catalyzes the hydrolysis of the thioester bond in palmitoyl-CoA; YbhC localizes to the cellular poles; member of pectinesterase family; pectinesterase complement(672020..673303) Shigella boydii Sb227 3779904 YP_407167.1 CDS ybhB NC_007613.1 673455 673931 R YbhB; similar to rat and human kinase inhibitory proteins; kinase inhibitor protein complement(673455..673931) Shigella boydii Sb227 3779905 YP_407168.1 CDS bioA NC_007613.1 673990 675279 R catalyzes the formation of S-adenosyl-4-methylthionine-2-oxobutanoate and 7,8-diaminononanoate from S-adenosyl-L-methionine and 8-amino-7-oxononanoate; adenosylmethionine-8-amino-7-oxononanoate aminotransferase complement(673990..675279) Shigella boydii Sb227 3779906 YP_407169.1 CDS bioB NC_007613.1 675366 676406 D sulfur insertion?; Code: H; COG: COG0502; biotin synthase 675366..676406 Shigella boydii Sb227 3779907 YP_407170.1 CDS bioF NC_007613.1 676403 677557 D catalyzes the formation of 8-amino-7-oxononanoate from 6-carboxyhexanoyl-CoA and L-alanine; 8-amino-7-oxononanoate synthase 676403..677557 Shigella boydii Sb227 3779908 YP_407171.1 CDS bioC NC_007613.1 677544 678299 D biotin biosynthesis; reaction prior to pimeloyl CoA; methyltransferase; acyl carrier protein involved in an unidentified step in the synthesis of pimeloyl-CoA, a biotin precursor; member of the bio operon (bioABFCD); in Escherichia coli, bioC-null mutants require biotin for growth; biotin biosynthesis protein BioC 677544..678299 Shigella boydii Sb227 3779909 YP_407172.1 CDS bioD NC_007613.1 678292 678969 D DTB synthetase; dethiobiotin synthase; involved in production of dethiobiotin from ATP and 7,8-diaminononanoate and carbon dioxide; contains magnesium; dithiobiotin synthetase 678292..678969 Shigella boydii Sb227 3779910 YP_407173.1 CDS uvrB NC_007613.1 679548 681569 D DNA repair; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. The beta-hairpin of the Uvr-B subunit is inserted between the strands, where it probes for the presence of a lesion; excinuclease ABC subunit B 679548..681569 Shigella boydii Sb227 3779911 YP_407174.1 CDS ybhK NC_007613.1 681761 682669 R Code: S; COG: COG0391; structural protein complement(681761..682669) Shigella boydii Sb227 3779912 YP_407175.1 CDS moaA NC_007613.1 683066 684055 D together with moaC, is involved in the conversion of a guanosine derivative (GXP) into molybdopterin precursor Z; molybdenum cofactor biosynthesis protein A 683066..684055 Shigella boydii Sb227 3779913 YP_407176.1 CDS moaB NC_007613.1 684077 684589 D Code: H; COG: COG0521; molybdopterin biosynthesis, protein B 684077..684589 Shigella boydii Sb227 3779914 YP_407177.1 CDS moaC NC_007613.1 684592 685077 D MoaC; along with MoaA is involved in conversion of a guanosine derivative into molybdopterin precursor Z; involved in molybdenum cofactor biosynthesis; molybdenum cofactor biosynthesis protein MoaC 684592..685077 Shigella boydii Sb227 3778984 YP_407178.1 CDS moaD NC_007613.1 685070 685315 D catalyzes the conversion of molybdopterin precursor Z into molybdopterin; molybdopterin synthase small subunit 685070..685315 Shigella boydii Sb227 3778985 YP_407179.1 CDS moaE NC_007613.1 685317 685769 D catalyzes the conversion of molybdopterin precursor Z into molybdopterin; molybdopterin guanine dinucleotide biosynthesis protein MoaE 685317..685769 Shigella boydii Sb227 3778986 YP_407180.1 CDS ybhL NC_007613.1 685906 686610 D Code: R; COG: COG0670; hypothetical protein 685906..686610 Shigella boydii Sb227 3778987 YP_407181.1 CDS insB NC_007613.1 687387 687890 D Code: L; COG: COG1662; IS1 ORF2 687387..687890 Shigella boydii Sb227 3778988 YP_407182.1 CDS ybhN NC_007613.1 688342 689217 R Code: S; COG: COG0392; hypothetical protein complement(688342..689217) Shigella boydii Sb227 3778990 YP_407183.1 CDS ybhQ NC_007613.1 691419 691829 D hypothetical protein 691419..691829 Shigella boydii Sb227 3778993 YP_407184.1 CDS ybhR NC_007613.1 691791 692897 R Code: V; COG: COG0842; hypothetical protein complement(691791..692897) Shigella boydii Sb227 3778994 YP_407185.1 CDS ybhS NC_007613.1 692908 694041 R Code: V; COG: COG0842; hypothetical protein complement(692908..694041) Shigella boydii Sb227 3778995 YP_407186.1 CDS ybhF NC_007613.1 694034 695770 R Code: V; COG: COG1131; ABC transporter ATP-binding protein complement(694034..695770) Shigella boydii Sb227 3778996 YP_407187.1 CDS SBO_0683 NC_007613.1 695763 696761 R Code: M; COG: COG0845; hypothetical protein complement(695763..696761) Shigella boydii Sb227 3778997 YP_407188.1 CDS ybiH NC_007613.1 696761 697444 R Code: K; COG: COG1309; DNA-binding transcriptional regulator complement(696761..697444) Shigella boydii Sb227 3778998 YP_407189.1 CDS rhlE NC_007613.1 697661 699025 D this helicase is not essential cell growth; ATP-dependent RNA helicase RhlE 697661..699025 Shigella boydii Sb227 3778999 YP_407190.1 CDS ybiA NC_007613.1 699257 699739 R Code: S; COG: COG3236; hypothetical protein complement(699257..699739) Shigella boydii Sb227 3779000 YP_407191.1 CDS dinG NC_007613.1 699859 702009 D helicase involved in DNA repair and perhaps also replication; ATP-dependent DNA helicase DinG 699859..702009 Shigella boydii Sb227 3779001 YP_407192.1 CDS ybiB NC_007613.1 702037 702999 D Code: E; COG: COG0547; glycosyl transferase family protein 702037..702999 Shigella boydii Sb227 3779002 YP_407193.1 CDS ybiC NC_007613.1 703140 704225 D Code: C; COG: COG2055; hypothetical protein 703140..704225 Shigella boydii Sb227 3779003 YP_407194.1 CDS ybiJ NC_007613.1 704453 704713 R hypothetical protein complement(704453..704713) Shigella boydii Sb227 3780187 YP_407195.1 CDS ybiI NC_007613.1 704978 705244 R Code: T; COG: COG1734; hypothetical protein complement(704978..705244) Shigella boydii Sb227 3780188 YP_407196.2 CDS ybiX NC_007613.1 705318 705995 R Code: S; COG: COG3128; hydroxylase complement(705318..705995) Shigella boydii Sb227 3780189 YP_407197.1 CDS SBO_0693 NC_007613.1 708040 708678 R IS4 orf complement(708040..708678) Shigella boydii Sb227 3780190 YP_407198.1 CDS SBO_0694 NC_007613.1 708797 709387 R IS4 orf complement(708797..709387) Shigella boydii Sb227 3780191 YP_407199.1 CDS ybiN NC_007613.1 710477 711484 D Code: R; COG: COG3129; SAM-dependent methyltransferase 710477..711484 Shigella boydii Sb227 3780194 YP_407200.1 CDS ybiO NC_007613.1 711544 713706 R Code: M; COG: COG0668; hypothetical protein complement(711544..713706) Shigella boydii Sb227 3780195 YP_407201.1 CDS SBO_0699 NC_007613.1 713784 714980 R Code: L; COG: COG3547; ISSfl2 ORF complement(713784..714980) Shigella boydii Sb227 3780196 YP_407202.1 CDS glnQ NC_007613.1 715416 716138 R similar to ATP-binding component of ABC transporters; glutamine ABC transporter ATP-binding protein complement(715416..716138) Shigella boydii Sb227 3780197 YP_407203.1 CDS glnP NC_007613.1 716135 716794 R similar to permease component of ABC transporters; mutations impair ability of Escherichia coli to transport and utilize glutamine; glutamine ABC transporter permease complement(716135..716794) Shigella boydii Sb227 3780198 YP_407204.1 CDS glnH NC_007613.1 716933 717679 R permease; similar to periplasmic-binding component of ABC transporters; glutamine ABC transporter periplasmic protein complement(716933..717679) Shigella boydii Sb227 3780199 YP_407205.1 CDS dps NC_007613.1 718083 718586 R binds DNA in a non-sequence-specific manner and is abundant during stationary phase; forms a DNA-protein crystal that protects DNA from damage; required for normal starvation response and long-term stationary viability; forms a homododecameric complex and sequesters iron which provides protection against oxidative damage; DNA starvation/stationary phase protection protein Dps complement(718083..718586) Shigella boydii Sb227 3780200 YP_407206.1 CDS ybiF NC_007613.1 718885 719772 R Code: R; COG: COG5006; threonine and homoserine efflux system complement(718885..719772) Shigella boydii Sb227 3780201 YP_407207.1 CDS ompX NC_007613.1 720125 720640 D OmpX; involved in cell adhesion; forms an eight-stranded antiparallel beta-barrel that protrudes from the cell surface; mutations in the gene increase cell-surface contact in fimbriated strains but decrease contact in nonfimbriated strains; outer membrane protein X 720125..720640 Shigella boydii Sb227 3780202 YP_407208.1 CDS ybiP NC_007613.1 720689 722272 R Code: R; COG: COG2194; hypothetical protein complement(720689..722272) Shigella boydii Sb227 3780203 YP_407209.1 CDS SBO_0707 NC_007613.1 722858 723325 D Transcriptional regulator that represses the manganese transporter MntH when manganese is present; manganese transport regulator MntR 722858..723325 Shigella boydii Sb227 3780204 YP_407210.1 CDS ybiR NC_007613.1 723322 724440 D Code: P; COG: COG0471; hypothetical protein 723322..724440 Shigella boydii Sb227 3780205 YP_407211.1 CDS ybiS NC_007613.1 724499 725419 R Code: S; COG: COG1376; hypothetical protein complement(724499..725419) Shigella boydii Sb227 3779236 YP_407212.1 CDS ybiT NC_007613.1 725638 727230 D Code: R; COG: COG0488; ABC transporter ATP-binding protein 725638..727230 Shigella boydii Sb227 3779237 YP_407213.1 CDS ybiU NC_007613.1 727471 728736 R hypothetical protein complement(727471..728736) Shigella boydii Sb227 3779238 YP_407214.1 CDS SBO_0712 NC_007613.1 728888 729703 R Code: R; COG: COG0561; hypothetical protein complement(728888..729703) Shigella boydii Sb227 3779239 YP_407215.1 CDS ybiW NC_007613.1 729849 732281 R Code: C; COG: COG1882; formate acetyltransferase complement(729849..732281) Shigella boydii Sb227 3779240 YP_407216.1 CDS ybiY NC_007613.1 732287 733213 R Code: O; COG: COG1180; pyruvate formate-lyase 2 activating enzyme complement(732287..733213) Shigella boydii Sb227 3779241 YP_407217.2 CDS mipB NC_007613.1 733317 733979 D similar to transaldolase from Escherichia coli; many organisms have multiple copies; fructose-6-phosphate aldolase 733317..733979 Shigella boydii Sb227 3779242 YP_407218.1 CDS moeB NC_007613.1 734055 734804 R ATP-dependent adenylate transferase, transfers adenyl moiety to the MoeD subunit of molybdopterin synthase; molybdopterin biosynthesis protein MoeB complement(734055..734804) Shigella boydii Sb227 3779243 YP_407219.1 CDS moeA NC_007613.1 734804 736039 R is involved in the formation of active molybdenum cofactor and the chelation of molybdenum; molybdopterin biosynthesis protein MoeA complement(734804..736039) Shigella boydii Sb227 3779244 YP_407220.1 CDS ybiK NC_007613.1 736243 737208 D Code: E; COG: COG1446; L-asparaginase 736243..737208 Shigella boydii Sb227 3779245 YP_407221.1 CDS SBO_0719 NC_007613.1 737228 739066 D with GsiBCD is involved in glutathione import; GsiA contains 2 ATP-binding domains; glutathione transporter ATP-binding protein 737228..739066 Shigella boydii Sb227 3779246 YP_407222.1 CDS SBO_0720 NC_007613.1 739086 740624 D Code: E; COG: COG0747; transporter 739086..740624 Shigella boydii Sb227 3779247 YP_407223.1 CDS SBO_0721 NC_007613.1 740642 741562 D Code: EP; COG: COG0601; transport system permease 740642..741562 Shigella boydii Sb227 3779248 YP_407224.1 CDS SBO_0722 NC_007613.1 741565 742476 D Code: EP; COG: COG1173; transport system permease 741565..742476 Shigella boydii Sb227 3779249 YP_407225.1 CDS SBO_0723 NC_007613.1 742654 743463 D hypothetical protein 742654..743463 Shigella boydii Sb227 3779250 YP_407226.1 CDS insB NC_007613.1 743686 744189 D Code: L; COG: COG1662; IS1 ORF2 743686..744189 Shigella boydii Sb227 3779251 YP_407227.1 CDS SBO_0725 NC_007613.1 744222 744647 D Code: T; COG: COG2200; hypothetical protein 744222..744647 Shigella boydii Sb227 3779252 YP_407228.1 CDS SBO_0726 NC_007613.1 744655 745983 D Code: T; COG: COG2199; hypothetical protein 744655..745983 Shigella boydii Sb227 3779253 YP_407229.1 CDS rimO NC_007613.1 746030 747355 R catalyzes the methylthiolation of an aspartic acid residue of the S12 protein of the 30S ribosomal subunit; 30S ribosomal protein S12 methylthiotransferase complement(746030..747355) Shigella boydii Sb227 3779254 YP_407230.1 CDS bssR NC_007613.1 747568 747951 D BssS; regulator of biofilm through signal secretion; disruption of this gene in Escherichia coli led to effects on biofilm formation, alteration in expression of a number of genes and mutations in bssS led to defects in indole transport and autoinducer-2 uptake and processing; biofilm formation regulatory protein BssR 747568..747951 Shigella boydii Sb227 3779255 YP_407231.2 CDS SBO_0729 NC_007613.1 748226 749131 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(748226..749131) Shigella boydii Sb227 3779122 YP_407232.1 CDS SBO_0730 NC_007613.1 749089 749454 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(749089..749454) Shigella boydii Sb227 3779123 YP_407233.1 CDS SBO_0731 NC_007613.1 749530 750249 R Code: L; COG: COG2801; IS2 ORF2 complement(749530..750249) Shigella boydii Sb227 3779124 YP_407234.1 CDS SBO_0732 NC_007613.1 750273 750638 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(750273..750638) Shigella boydii Sb227 3779125 YP_407235.1 CDS yliI NC_007613.1 750734 751849 D Code: G; COG: COG2133; dehydrogenase 750734..751849 Shigella boydii Sb227 3779126 YP_407236.1 CDS yliJ NC_007613.1 751846 752424 R Code: O; COG: COG0625; transferase complement(751846..752424) Shigella boydii Sb227 3779127 YP_407237.1 CDS deoR NC_007613.1 753956 754714 R transcriptional repressor for deo operon, tsx, nupG; Code: KG; COG: COG1349; DNA-binding transcriptional repressor DeoR complement(753956..754714) Shigella boydii Sb227 3779129 YP_407238.1 CDS ybjG NC_007613.1 754772 755368 R Code: I; COG: COG0671; undecaprenyl pyrophosphate phosphatase complement(754772..755368) Shigella boydii Sb227 3779130 YP_407239.1 CDS cmr NC_007613.1 755675 756883 D Code: GEPR; COG: COG0477; proton motive force efflux pump 755675..756883 Shigella boydii Sb227 3779131 YP_407240.1 CDS ybjH NC_007613.1 756924 757208 R hypothetical protein complement(756924..757208) Shigella boydii Sb227 3779132 YP_407241.1 CDS SBO_0740 NC_007613.1 757294 758082 R Code: R; COG: COG0561; hypothetical protein complement(757294..758082) Shigella boydii Sb227 3779133 YP_407242.1 CDS SBO_0741 NC_007613.1 758109 759317 R Code: GEPR; COG: COG0477; DEOR-type transcriptional regulator complement(758109..759317) Shigella boydii Sb227 3779134 YP_407243.1 CDS SBO_0742 NC_007613.1 759401 759937 D Code: S; COG: COG3226; DEOR-type transcriptional regulator 759401..759937 Shigella boydii Sb227 3779135 YP_407244.1 CDS SBO_0743 NC_007613.1 760244 761083 R Code: L; COG: COG2801; IS911 ORF2 complement(760244..761083) Shigella boydii Sb227 3779136 YP_407245.1 CDS SBO_0744 NC_007613.1 761234 762121 R Code: L; COG: COG2801; IS629 ORF2 complement(761234..762121) Shigella boydii Sb227 3779137 YP_407246.1 CDS SBO_0745 NC_007613.1 762121 762396 R Code: L; COG: COG2963; IS629 ORF1 complement(762121..762396) Shigella boydii Sb227 3779138 YP_407247.1 CDS insB NC_007613.1 762514 763017 R Code: L; COG: COG1662; IS1 ORF2 complement(762514..763017) Shigella boydii Sb227 3779139 YP_407248.1 CDS SBO_0747 NC_007613.1 763110 763292 D IS1 encoded protein 763110..763292 Shigella boydii Sb227 3779140 YP_407249.1 CDS SBO_0748 NC_007613.1 763483 764052 R Code: K; COG: COG2932; repressor protein complement(763483..764052) Shigella boydii Sb227 3779955 YP_407250.1 CDS SBO_0749 NC_007613.1 764178 764399 D hypothetical protein 764178..764399 Shigella boydii Sb227 3779956 YP_407251.1 CDS SBO_0750 NC_007613.1 765010 765849 D Code: L; COG: COG2801; IS911 ORF2 765010..765849 Shigella boydii Sb227 3779957 YP_407252.1 CDS SBO_0751 NC_007613.1 765949 766497 D Code: L; COG: COG0338; DNA adenine methylase 765949..766497 Shigella boydii Sb227 3779958 YP_407253.1 CDS SBO_0752 NC_007613.1 766494 768908 D endonuclease 766494..768908 Shigella boydii Sb227 3779959 YP_407254.1 CDS SBO_0753 NC_007613.1 769189 769494 D damage-inducible protein 769189..769494 Shigella boydii Sb227 3779960 YP_407255.1 CDS SBO_0754 NC_007613.1 769787 771436 D hypothetical protein 769787..771436 Shigella boydii Sb227 3779961 YP_407256.1 CDS SBO_0755 NC_007613.1 771438 772301 D hypothetical protein 771438..772301 Shigella boydii Sb227 3779962 YP_407257.1 CDS SBO_0756 NC_007613.1 772408 772752 R capsid portal protein complement(772408..772752) Shigella boydii Sb227 3779963 YP_407258.1 CDS SBO_0757 NC_007613.1 772843 773439 R Code: R; COG: COG5518; capsid portal protein complement(772843..773439) Shigella boydii Sb227 3779964 YP_407259.1 CDS SBO_0758 NC_007613.1 773439 775205 R Code: S; COG: COG5484; terminase, ATPase subunit complement(773439..775205) Shigella boydii Sb227 3779965 YP_407260.1 CDS SBO_0759 NC_007613.1 775348 776181 D capsid scaffolding protein 775348..776181 Shigella boydii Sb227 3779966 YP_407261.1 CDS SBO_0760 NC_007613.1 776198 777256 D major capsid protein 776198..777256 Shigella boydii Sb227 3779967 YP_407262.1 CDS SBO_0761 NC_007613.1 777260 777910 D terminase, endonuclease subunit 777260..777910 Shigella boydii Sb227 3779968 YP_407263.1 CDS SBO_0762 NC_007613.1 778006 778470 D capsid completion protein 778006..778470 Shigella boydii Sb227 3779969 YP_407264.1 CDS SBO_0763 NC_007613.1 778470 778673 D Code: R; COG: COG5004; phage tail protein 778470..778673 Shigella boydii Sb227 3779970 YP_407265.1 CDS nucE NC_007613.1 778677 778892 D secretory protein 778677..778892 Shigella boydii Sb227 3779971 YP_407266.1 CDS SBO_0765 NC_007613.1 778873 779385 D Code: R; COG: COG3772; lysozyme protein R of prophage CP-933K 778873..779385 Shigella boydii Sb227 3779972 YP_407267.1 CDS SBO_0766 NC_007613.1 779387 779764 D hypothetical protein 779387..779764 Shigella boydii Sb227 3779973 YP_407268.1 CDS SBO_0767 NC_007613.1 779761 780189 D regulatory protein 779761..780189 Shigella boydii Sb227 3779974 YP_407269.1 CDS SBO_0768 NC_007613.1 780285 780716 D phage tail protein 780285..780716 Shigella boydii Sb227 3780245 YP_407270.1 CDS SBO_0769 NC_007613.1 780709 781152 D phage tail protein 780709..781152 Shigella boydii Sb227 3780246 YP_407271.1 CDS SBO_0770 NC_007613.1 781156 781332 R IS1 encoded protein complement(781156..781332) Shigella boydii Sb227 3780247 YP_407272.1 CDS insB NC_007613.1 781425 781928 D Code: L; COG: COG1662; IS1 ORF2 781425..781928 Shigella boydii Sb227 3780248 YP_407273.1 CDS SBO_0772 NC_007613.1 782015 782452 R hypothetical protein complement(782015..782452) Shigella boydii Sb227 3780249 YP_407274.1 CDS pin NC_007613.1 782871 783437 D Code: L; COG: COG1961; inversion of adjacent DNA; at locus of e14 element 782871..783437 Shigella boydii Sb227 3780250 YP_407275.1 CDS SBO_0774 NC_007613.1 783580 784752 D Code: R; COG: COG3497; major tail sheath protein 783580..784752 Shigella boydii Sb227 3780251 YP_407276.1 CDS SBO_0775 NC_007613.1 784762 785277 D Code: R; COG: COG3498; major tail tube protein 784762..785277 Shigella boydii Sb227 3780252 YP_407277.1 CDS SBO_0776 NC_007613.1 785332 785634 D phage tail protein 785332..785634 Shigella boydii Sb227 3780253 YP_407278.1 CDS SBO_0777 NC_007613.1 785761 788838 D Code: S; COG: COG5283; bacteriophage tail protein 785761..788838 Shigella boydii Sb227 3780254 YP_407279.1 CDS SBO_0778 NC_007613.1 788835 789320 D Code: R; COG: COG3499; bacteriophage tail protein 788835..789320 Shigella boydii Sb227 3780255 YP_407280.1 CDS SBO_0779 NC_007613.1 789317 790417 D Code: R; COG: COG3500; bacteriophage late gene regulator 789317..790417 Shigella boydii Sb227 3780256 YP_407281.1 CDS SBO_0780 NC_007613.1 790475 790726 D bacteriophage late gene regulator 790475..790726 Shigella boydii Sb227 3780257 YP_407282.1 CDS SBO_0781 NC_007613.1 790963 792648 R Code: R; COG: COG2985; hypothetical protein complement(790963..792648) Shigella boydii Sb227 3780258 YP_407283.1 CDS ybjM NC_007613.1 792918 793295 D hypothetical protein 792918..793295 Shigella boydii Sb227 3780259 YP_407284.1 CDS grxA NC_007613.1 793325 793582 R glutaredoxin1 redox coenzyme for glutathione-dependent ribonucleotide reductase; functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase; also involved in reducing some disulfides in a coupled system with glutathione reductase; glutaredoxin complement(793325..793582) Shigella boydii Sb227 3780260 YP_407285.1 CDS ybjC NC_007613.1 793742 794029 D YbjC; located in the same operon as the nfsA gene; member of the soxRS regulon which mediates in part the increased levels of superoxide in response to oxidative stress; induced by paraquat; regulated by SoxS; unknown function; hypothetical protein 793742..794029 Shigella boydii Sb227 3780261 YP_407286.1 CDS mdaA NC_007613.1 794013 794735 D NADPH-dependent; oxygen-insensitive; catalyzes the reduction of nitroaromatic compounds; nitroreductase A 794013..794735 Shigella boydii Sb227 3780262 YP_407287.1 CDS rimK NC_007613.1 794796 795698 D responsible for the addition of glutamate residues to the C-terminus of ribosomal protein S6; ribosomal protein S6 modification protein 794796..795698 Shigella boydii Sb227 3780263 YP_407288.1 CDS ybjN NC_007613.1 795786 796262 D sensory transduction regulator 795786..796262 Shigella boydii Sb227 3780012 YP_407289.1 CDS potF NC_007613.1 796613 797725 D permease protein; Code: E; COG: COG0687; putrescine ABC transporter periplasmic-binding protein 796613..797725 Shigella boydii Sb227 3780013 YP_407290.2 CDS potG NC_007613.1 797820 798953 D part of the PotFGHI ATP-dependent putrescine transporter; putrescine ABC transporter ATP-binding protein 797820..798953 Shigella boydii Sb227 3780014 YP_407291.1 CDS potH NC_007613.1 798963 799916 D permease; Code: E; COG: COG1176; putrescine ABC transporter membrane protein 798963..799916 Shigella boydii Sb227 3780015 YP_407292.1 CDS potI NC_007613.1 799913 800758 D permease; Code: E; COG: COG1177; putrescine ABC transporter membrane protein 799913..800758 Shigella boydii Sb227 3780016 YP_407293.1 CDS ybjO NC_007613.1 800818 801306 D hypothetical protein 800818..801306 Shigella boydii Sb227 3780017 YP_407294.1 CDS rumB NC_007613.1 801347 802474 D RNA uridine methyltransferase B; catalyzes the formation of 5-methyl-uridine at position 747 in 23S rRNA; 23S rRNA methyluridine methyltransferase 801347..802474 Shigella boydii Sb227 3780018 YP_407295.1 CDS artJ NC_007613.1 802649 803380 R Code: ET; COG: COG0834; arginine 3rd transport system periplasmic binding protein complement(802649..803380) Shigella boydii Sb227 3780019 YP_407296.1 CDS artM NC_007613.1 803671 804339 R with ArtPQJI acts to transport arginine across the inner membrane; arginine transporter permease subunit ArtM complement(803671..804339) Shigella boydii Sb227 3780020 YP_407297.1 CDS artQ NC_007613.1 804339 805055 R with ArtPMJI transports arginine across the inner membrane; arginine transporter permease subunit ArtQ complement(804339..805055) Shigella boydii Sb227 3780021 YP_407298.1 CDS artI NC_007613.1 805062 805793 R Code: ET; COG: COG0834; arginine 3rd transport system periplasmic binding protein complement(805062..805793) Shigella boydii Sb227 3780022 YP_407299.1 CDS artP NC_007613.1 805811 806539 R With ArtMQJI transports arginine across the inner membrane; arginine transporter ATP-binding subunit complement(805811..806539) Shigella boydii Sb227 3780023 YP_407300.1 CDS SBO_0799 NC_007613.1 807398 807721 D Code: S; COG: COG0393; hypothetical protein 807398..807721 Shigella boydii Sb227 3780024 YP_407301.1 CDS SBO_0800 NC_007613.1 807718 808548 D Code: V; COG: COG3023; regulator 807718..808548 Shigella boydii Sb227 3780025 YP_407302.1 CDS SBO_0801 NC_007613.1 808545 809594 R Code: MG; COG: COG0451; nucleotide di-P-sugar epimerase or dehydratase complement(808545..809594) Shigella boydii Sb227 3780026 YP_407303.1 CDS ybjT NC_007613.1 809657 811087 R Code: MG; COG: COG0702; dTDP-glucose enzyme complement(809657..811087) Shigella boydii Sb227 3780027 YP_407304.1 CDS ybjU NC_007613.1 811098 812099 R low- specificity; catalyzes the formation of acetaldehyde and glycine from L-threonine; acts on L-threonine, L-allo-threonine, L-threo-phenylserine, and L-erythro-phenylserine; L-threonine aldolase complement(811098..812099) Shigella boydii Sb227 3780028 YP_407305.1 CDS poxB NC_007613.1 812136 813854 R catalyzes the formation of acetate from pyruvate; pyruvate dehydrogenase complement(812136..813854) Shigella boydii Sb227 3780029 YP_407306.1 CDS SBO_0805 NC_007613.1 813987 814955 R Code: C; COG: COG1018; HCP oxidoreductase complement(813987..814955) Shigella boydii Sb227 3780030 YP_407307.2 CDS ybjW NC_007613.1 814967 816619 R catalyzes the reduction of hydroxylamine to ammonia and water; hydroxylamine reductase complement(814967..816619) Shigella boydii Sb227 3780031 YP_407308.1 CDS ybjE NC_007613.1 816763 817710 R Code: S; COG: COG2431; surface protein complement(816763..817710) Shigella boydii Sb227 3779502 YP_407309.1 CDS aqpZ NC_007613.1 818156 818851 R transmembrane water channel; porin involved in osmoregulation allowing water to move into and out of the cell in response to osmotic pressure; aquaporin Z complement(818156..818851) Shigella boydii Sb227 3779503 YP_407310.1 CDS ybjD NC_007613.1 819277 820935 D Code: L; COG: COG3593; hypothetical protein 819277..820935 Shigella boydii Sb227 3779504 YP_407311.1 CDS ybjX NC_007613.1 820932 821924 R Code: S; COG: COG2990; hypothetical protein complement(820932..821924) Shigella boydii Sb227 3779505 YP_407312.2 CDS SBO_0811 NC_007613.1 822039 823154 D confers macrolide resistance via active drug efflux; macrolide transporter subunit MacA 822039..823154 Shigella boydii Sb227 3779506 YP_407313.1 CDS ybjZ NC_007613.1 823151 825097 D with MacA is involved in the export of macrolide; macrolide transporter ATP-binding /permease 823151..825097 Shigella boydii Sb227 3779507 YP_407314.1 CDS cspD NC_007613.1 825170 825394 R inhibits DNA replication at both initiation and elongation steps; stationary phase and starvation inducible; stationary phase/starvation inducible regulatory protein CspD complement(825170..825394) Shigella boydii Sb227 3779508 YP_407315.1 CDS clpS NC_007613.1 825717 826037 D involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation; binds to the N-terminal domain of the chaperone ClpA; ATP-dependent Clp protease adaptor protein ClpS 825717..826037 Shigella boydii Sb227 3779509 YP_407316.1 CDS clpA NC_007613.1 826068 828344 D ATPase and specificity subunit of the ClpA-ClpP ATP dependent serine protease; directs protease to specific substrates; ATP-dependent Clp protease ATP-binding subunit 826068..828344 Shigella boydii Sb227 3779510 YP_407317.1 CDS infA NC_007613.1 829029 829247 R stimulates the activities of the other two initiation factors, IF-2 and IF-3; translation initiation factor IF-1 complement(829029..829247) Shigella boydii Sb227 3779512 YP_407318.1 CDS aat NC_007613.1 829532 830236 R leucyltransferase; phenylalanyltransferse; functions in the N-end rule pathway; transfers Leu, Phe, Met, from aminoacyl-tRNAs to N-terminal of proteins with Arg or Lys; leucyl/phenylalanyl-tRNA--protein transferase complement(829532..830236) Shigella boydii Sb227 3779513 YP_407319.1 CDS cydC NC_007613.1 830278 831999 R in Escherichia coli the CydCD ABC transporter exports cysteine and glutathione into the periplasm in order to maintain redox balance; important for cytochrome bd and c; cysteine/glutathione ABC transporter membrane/ATP-binding protein complement(830278..831999) Shigella boydii Sb227 3779514 YP_407320.1 CDS cydD NC_007613.1 832000 833766 R Zn sensitive; in Escherichia coli the CydCD ABC transporter exports cysteine and glutathione into the periplasm in order to maintain redox balance; important for cytochrome bd and c; cysteine/glutathione ABC transporter membrane/ATP-binding protein complement(832000..833766) Shigella boydii Sb227 3779515 YP_407321.1 CDS trxB NC_007613.1 833889 834854 R catalyzes the transfer of electrons from NADPH to thioredoxin; FAD/NAD(P) binding; thioredoxin reductase complement(833889..834854) Shigella boydii Sb227 3779516 YP_407322.1 CDS lrp NC_007613.1 835399 835893 D regulator for leucine (or lrp) regulon and high-affinity branched-chain amino acid transport system; mediates a global response to leucine; acts as a regulator for several genes involved in the high-affinity branched-chain amino acid transport system; leucine-responsive transcriptional regulator 835399..835893 Shigella boydii Sb227 3779517 YP_407323.1 CDS ftsK NC_007613.1 836028 840056 D DNA-binding membrane protein required for chromosome resolution and partitioning; DNA translocase FtsK 836028..840056 Shigella boydii Sb227 3779518 YP_407324.1 CDS lolA NC_007613.1 840208 840822 D periplasmic protein effects translocation of lipoproteins from inner membrane to outer; participates with LolB in the incorporation of lipoprotein into the outer membrane; outer-membrane lipoprotein carrier protein 840208..840822 Shigella boydii Sb227 3779519 YP_407325.1 CDS ycaJ NC_007613.1 840833 842176 D Code: L; COG: COG2256; recombination factor protein RarA 840833..842176 Shigella boydii Sb227 3779159 YP_407326.1 CDS serS NC_007613.1 842267 843559 D also charges selenocystein tRNA with serine; catalyzes a two-step reaction, first charging a serine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; seryl-tRNA synthetase 842267..843559 Shigella boydii Sb227 3779160 YP_407327.1 CDS dmsA NC_007613.1 844125 846242 D Code: C; COG: COG0243; anaerobic dimethyl sulfoxide reductase subunit A 844125..846242 Shigella boydii Sb227 3779161 YP_407328.1 CDS SBO_0829 NC_007613.1 846698 846973 D Code: L; COG: COG2963; IS629 ORF1 846698..846973 Shigella boydii Sb227 3779163 YP_407329.1 CDS SBO_0830 NC_007613.1 847212 847859 D Code: L; COG: COG2801; IS629 ORF2 847212..847859 Shigella boydii Sb227 3779164 YP_407330.1 CDS insB NC_007613.1 847904 848113 D IS1 ORF2 847904..848113 Shigella boydii Sb227 3779165 YP_407331.1 CDS yeeX NC_007613.1 848301 848696 R Code: S; COG: COG2926; hypothetical protein complement(848301..848696) Shigella boydii Sb227 3779166 YP_407332.1 CDS yeeA NC_007613.1 848802 849395 R Code: S; COG: COG1289; hypothetical protein complement(848802..849395) Shigella boydii Sb227 3779167 YP_407333.1 CDS SBO_0834 NC_007613.1 849471 850310 R Code: L; COG: COG2801; IS911 ORF2 complement(849471..850310) Shigella boydii Sb227 3779168 YP_407334.1 CDS sbcB NC_007613.1 850972 852396 D exonuclease I, 3' --> 5' specific; Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates; exonuclease I 850972..852396 Shigella boydii Sb227 3779169 YP_407335.1 CDS yeeD NC_007613.1 852439 852666 R Code: O; COG: COG0425; hypothetical protein complement(852439..852666) Shigella boydii Sb227 3779170 YP_407336.2 CDS SBO_0837 NC_007613.1 853143 854048 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(853143..854048) Shigella boydii Sb227 3779171 YP_407337.1 CDS SBO_0838 NC_007613.1 854006 854371 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(854006..854371) Shigella boydii Sb227 3779172 YP_407338.1 CDS yeeF NC_007613.1 855253 856617 R Code: E; COG: COG0531; amino acid/amine transport protein complement(855253..856617) Shigella boydii Sb227 3779174 YP_407339.1 CDS yeeY NC_007613.1 856878 857807 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(856878..857807) Shigella boydii Sb227 3779175 YP_407340.1 CDS SBO_0842 NC_007613.1 857853 858677 R Code: MG; COG: COG0451; enzyme of sugar metabolism complement(857853..858677) Shigella boydii Sb227 3779176 YP_407341.2 CDS yefM NC_007613.1 859011 859262 R Antitoxin that counteracts the effect of the YoeB toxin; antitoxin YefM complement(859011..859262) Shigella boydii Sb227 3779177 YP_407343.1 CDS hisG NC_007613.1 859741 860640 D long form of enzyme; catalyzes the formation of N'-5'-phosphoribosyl-ATP from phosphoribosyl pyrophosphate; crucial role in histidine biosynthesis; forms active dimers and inactive hexamers which is dependent on concentration of substrates and inhibitors; ATP phosphoribosyltransferase 859741..860640 Shigella boydii Sb227 3779802 YP_407344.1 CDS hisD NC_007613.1 860646 861950 D L-histidinol:NAD+ oxidoreductase; catalyzes the oxidation of L-histidinol to L-histidinaldehyde and then to L-histidine in histidine biosynthesis; functions as a dimer; histidinol dehydrogenase 860646..861950 Shigella boydii Sb227 3779803 YP_407345.1 CDS hisC NC_007613.1 861947 863017 D catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis; histidinol-phosphate aminotransferase 861947..863017 Shigella boydii Sb227 3779804 YP_407346.1 CDS hisB NC_007613.1 863017 864084 D histidinol-phosphate phosphatase; catalyzes the formation of 3-(imidazol-4-yl)-2-oxopropyl phosphate from D-ethythro-1-(imidazol-4-yl)glycerol 3-phosphate and histidinol from histidinol phosphate; imidazole glycerol-phosphate dehydratase/histidinol phosphatase 863017..864084 Shigella boydii Sb227 3779805 YP_407347.1 CDS hisH NC_007613.1 864084 864674 D imidazole glycerol phosphate synthase holoenzyme; with HisF IGPS catalyzes the conversion of phosphoribulosyl-formimino-5-aminoimidazole-4-carboxamide ribonucleotide phosphate and glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamide ribonucleotide, and glutamate in histidine biosynthesis; the HisH subunit provides the glutamine amidotransferase activity that produces the ammonia necessary to HisF for the synthesis of imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide ribonucleotide; imidazole glycerol phosphate synthase subunit HisH 864084..864674 Shigella boydii Sb227 3779806 YP_407348.1 CDS hisA NC_007613.1 864674 865411 D catalyzes the formation of 5-(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino-l- (5-phosphoribosyl)imidazole-4-carboxamide from 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide; 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase 864674..865411 Shigella boydii Sb227 3779807 YP_407349.1 CDS hisF NC_007613.1 865393 866169 D imidazole glycerol phsphate synthase holoenzyme; catalyzes the conversion of 5-[(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino]- 1-(5-phosphoribosyl)imidazole-4-carboxamideand glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamideribonucleotide and glutamate; the HisF subunit acts as a cyclase; imidazole glycerol phosphate synthase subunit HisF 865393..866169 Shigella boydii Sb227 3779808 YP_407350.1 CDS hisI NC_007613.1 866163 866774 D phosphoribosyl-ATP pyrophosphatase; catalyzes the formation of 1-(5-phosphoribosyl)-AMP from 1-(5-phosphoribosyl)-ATP and the subsequent formation of 1-(5-phosphoribosyl)-5-((5- phosphoribosylamino)methylideneamino)imidazole-4- carboxamide from 1-(5-phosphoribosyl)-AMP in histidine biosynthesis; bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase 866163..866774 Shigella boydii Sb227 3779809 YP_407351.1 CDS wzzB NC_007613.1 866871 867905 R Code: M; COG: COG3765; regulator of length of O-antigen component of lipopolysaccharide chains complement(866871..867905) Shigella boydii Sb227 3779810 YP_407352.1 CDS SBO_0854 NC_007613.1 868813 869700 R Code: L; COG: COG2801; IS629 ORF2 complement(868813..869700) Shigella boydii Sb227 3779811 YP_407353.1 CDS SBO_0855 NC_007613.1 869700 869975 R Code: L; COG: COG2963; IS629 ORF1 complement(869700..869975) Shigella boydii Sb227 3779812 YP_407354.1 CDS SBO_0856 NC_007613.1 870137 870574 D nucleotide sugar epimerase 870137..870574 Shigella boydii Sb227 3779813 YP_407355.1 CDS ugd NC_007613.1 870640 871806 R Code: M; COG: COG1004; UDP-glucose 6-dehydrogenase complement(870640..871806) Shigella boydii Sb227 3779814 YP_407356.1 CDS gnd NC_007613.1 872055 873407 R catalyzes the formation of D-ribulose 5-phosphate from 6-phospho-D-gluconate; 6-phosphogluconate dehydrogenase complement(872055..873407) Shigella boydii Sb227 3779815 YP_407357.1 CDS wbdS NC_007613.1 873587 874663 R Code: M; COG: COG0438; glycosyl transferase family protein complement(873587..874663) Shigella boydii Sb227 3779816 YP_407358.1 CDS wzy NC_007613.1 874635 875927 R O-antigen polymerase complement(874635..875927) Shigella boydii Sb227 3779817 YP_407359.1 CDS wbdG NC_007613.1 875931 876941 R glycosyl transferase family protein complement(875931..876941) Shigella boydii Sb227 3779818 YP_407360.1 CDS wzx NC_007613.1 877026 878255 R O-antigen flippase complement(877026..878255) Shigella boydii Sb227 3779819 YP_407361.1 CDS wbdF NC_007613.1 878236 879348 R glycosyl transferase family protein complement(878236..879348) Shigella boydii Sb227 3779820 YP_407362.1 CDS wbdE NC_007613.1 879345 880187 R glycosyl transferase family protein complement(879345..880187) Shigella boydii Sb227 3779082 YP_407363.1 CDS rfbC NC_007613.1 880174 880743 R Code: M; COG: COG1898; dTDP-4-dehydrorhamnose 3,5-epimerase complement(880174..880743) Shigella boydii Sb227 3779083 YP_407364.1 CDS rfbA NC_007613.1 880748 881626 R Code: M; COG: COG1209; glucose-1-phosphate thymidylyltransferase complement(880748..881626) Shigella boydii Sb227 3779084 YP_407365.1 CDS rfbD NC_007613.1 881684 882583 R with dTDP-4-dehydrorhamnose 3,5-epimerase forms a complex known as dTDP-L-rhamnose synthetase; catalyzes the reduction of dTDP-4-dehydro-6-deoxy-L-mannose to dTDP-L-rhamnose; dTDP-4-dehydrorhamnose reductase complement(881684..882583) Shigella boydii Sb227 3779085 YP_407366.1 CDS rfbB NC_007613.1 882583 883668 R NAD(P) binding; catalyzes the formation of dTDP-4-dehydro-6-deoxy-D-glucose from dTDP-glucose; dTDP-glucose-4,6-dehydratase complement(882583..883668) Shigella boydii Sb227 3779086 YP_407367.1 CDS galF NC_007613.1 884041 884934 R similar to of Salmonella UTP--glucose-1-P uridyltransferase; together with GalU subunit composes the UTP--glucose-1-phosphate uridylyltransferase, an enzyme that catalyzes the formation of UDP-glucose from UTP and alpha-D-glucose 1-phosphate; regulates cellular levels of UDP-glucose; UTP--glucose-1-phosphate uridylyltransferase subunit GalF complement(884041..884934) Shigella boydii Sb227 3779087 YP_407368.1 CDS wcaM NC_007613.1 885109 886503 R WcaM from Salmonella enterica is essential for biofilm formation on HEp-2 cells and chicken intestinal tissue but not on a plastic surface; may be involved in the biosynthesis of colanic acid; colanic acid biosynthesis protein complement(885109..886503) Shigella boydii Sb227 3779088 YP_407369.1 CDS wcaL NC_007613.1 886514 887734 R Code: M; COG: COG0438; colanic acid biosynthesis glycosyl transferase complement(886514..887734) Shigella boydii Sb227 3779089 YP_407370.1 CDS wcaK NC_007613.1 887731 889011 R Code: S; COG: COG2327; pyruvyl transferase complement(887731..889011) Shigella boydii Sb227 3779090 YP_407371.1 CDS wzxC NC_007613.1 889383 890861 R Code: R; COG: COG2244; colanic acid exporter complement(889383..890861) Shigella boydii Sb227 3779091 YP_407372.1 CDS wcaJ NC_007613.1 890863 892257 R WcaJ; glucose-1-phosphate transferase responsible for the addition of the first glucose-1-phosphate from UDP-glucose to the lipid carrier undecaprenyl phosphate in the biosynthesis of colanic acid; UDP-glucose lipid carrier transferase complement(890863..892257) Shigella boydii Sb227 3779092 YP_407373.1 CDS cpsG NC_007613.1 892312 893682 R Code: G; COG: COG1109; phosphomannomutase complement(892312..893682) Shigella boydii Sb227 3779093 YP_407374.1 CDS cpsB NC_007613.1 893875 895311 R Code: M; COG: COG0836; mannose-1-phosphate guanyltransferase complement(893875..895311) Shigella boydii Sb227 3779094 YP_407375.1 CDS wcaH NC_007613.1 896534 897016 R Code: LR; COG: COG0494; GDP-mannose mannosyl hydrolase complement(896534..897016) Shigella boydii Sb227 3779096 YP_407376.1 CDS wcaG NC_007613.1 897016 897981 R dehydratase; Code: MG; COG: COG0451; nucleotide di-P-sugar epimerase complement(897016..897981) Shigella boydii Sb227 3779097 YP_407377.1 CDS gmd NC_007613.1 897984 899105 R Code: M; COG: COG1089; GDP-D-mannose dehydratase complement(897984..899105) Shigella boydii Sb227 3779098 YP_407378.1 CDS wcaF NC_007613.1 899131 899679 R acetyltransferase believed to catalyze the addition of the acetyl group that is attached through an O linkage to the first fucosyl residue of the colanic acid repetitive unit (E unit); colanic acid biosynthesis acetyltransferase WcaF complement(899131..899679) Shigella boydii Sb227 3779099 YP_407379.1 CDS wcaE NC_007613.1 899695 900441 R Code: M; COG: COG0463; glycosyl transferase family protein complement(899695..900441) Shigella boydii Sb227 3779100 YP_407380.1 CDS wcaD NC_007613.1 900452 901669 R essential for colanic acid biosynthesis; colanic acid is an exopolysaccharide produced under stress conditions that confers acid and heat tolerance; colanic acid biosynthesis protein complement(900452..901669) Shigella boydii Sb227 3779101 YP_407381.1 CDS wcaC NC_007613.1 901644 902861 R Code: M; COG: COG0438; glycosyl transferase family protein complement(901644..902861) Shigella boydii Sb227 3779404 YP_407382.1 CDS wcaB NC_007613.1 902858 903346 R acetyltransferase believed to catalyze the addition of the acetyl group that is attached through an O linkage to the first fucosyl residue of the colanic acid repetitive unit (E unit); wcaB is induced in sessile bacteria and by osmotic shock, and repressed when grown in rich medium; colanic acid biosynthesis acetyltransferase WcaB complement(902858..903346) Shigella boydii Sb227 3779405 YP_407383.1 CDS wcaA NC_007613.1 903349 904188 R Code: M; COG: COG0463; glycosyl transferase family protein complement(903349..904188) Shigella boydii Sb227 3779406 YP_407384.1 CDS wzb NC_007613.1 906531 906974 R Wzb shows phosphatase activity towards the autophosphorylated Wzc protein, which induces colanic acid biosynthesis; catalyzes the phosphorylation of UDP-glucose dehydrogenase, an enzyme involved in colanic acid biosynthesis; tyrosine phosphatase complement(906531..906974) Shigella boydii Sb227 3779408 YP_407385.1 CDS wza NC_007613.1 906980 908119 R Code: M; COG: COG1596; polysaccharide export protein complement(906980..908119) Shigella boydii Sb227 3779409 YP_407386.1 CDS yegH NC_007613.1 908712 910361 D Code: R; COG: COG1253; transporter 908712..910361 Shigella boydii Sb227 3779410 YP_407387.1 CDS asmA NC_007613.1 910635 912488 R YegA; inner membrane protein involved in the assembly of outer membrane proteins (OMPs); asmA-null mutants show low lipopolysaccharide (LPS) levels, suggesting a role in LPS biogenesis and/or in restricting outer membrane fluidity, resulting on altered assembly of OMPs; assembly protein complement(910635..912488) Shigella boydii Sb227 3779411 YP_407388.1 CDS dcd NC_007613.1 912510 913091 R Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis; deoxycytidine triphosphate deaminase complement(912510..913091) Shigella boydii Sb227 3779412 YP_407389.2 CDS udk NC_007613.1 913183 913824 R functions in pyrimidine salvage; pyrimidine ribonucleoside kinase; phosphorylates nucleosides or dinucleosides to make UMP or CMP using ATP or GTP as the donor; uridine kinase complement(913183..913824) Shigella boydii Sb227 3779413 YP_407390.1 CDS alkA NC_007613.1 917478 918335 R inducible, catalyzes the hydrolysis of alkylated DNA, releasing 3-methyladenine, 3-methylguanine, 7-methylguanine and 7-methyladenine; 3-methyladenine DNA glycosylase complement(917478..918335) Shigella boydii Sb227 3779415 YP_407391.2 CDS yegD NC_007613.1 918469 919821 D Code: O; COG: COG0443; chaperone 918469..919821 Shigella boydii Sb227 3779416 YP_407392.1 CDS SBO_0897 NC_007613.1 919833 921755 R Code: R; COG: COG4248; chaperonin complement(919833..921755) Shigella boydii Sb227 3779417 YP_407393.1 CDS SBO_0898 NC_007613.1 921752 922513 R hypothetical protein complement(921752..922513) Shigella boydii Sb227 3779418 YP_407394.1 CDS SBO_0899 NC_007613.1 922510 923169 R Code: R; COG: COG4245; hypothetical protein complement(922510..923169) Shigella boydii Sb227 3779419 YP_407395.2 CDS SBO_0900 NC_007613.1 924385 925632 D Part of a tripartite efflux system composed of MdtA, MdtB and MdtC which confers resistance against novobiocin and deoxycholate; multidrug efflux system subunit MdtA 924385..925632 Shigella boydii Sb227 3779420 YP_407396.1 CDS yegN NC_007613.1 925632 928754 D Part of a tripartite efflux system composed of MdtA, MdtB and MdtC which confers resistance against novobiocin and deoxycholate; multidrug efflux system subunit MdtB 925632..928754 Shigella boydii Sb227 3779421 YP_407397.1 CDS yegO NC_007613.1 928755 931832 D Part of a tripartite efflux system composed of MdtA, MdtB and MdtC; confers resistance against novobiocin and deoxycholate; multidrug efflux system subunit MdtC 928755..931832 Shigella boydii Sb227 3779422 YP_407398.1 CDS yegB NC_007613.1 931833 933248 D Code: GEPR; COG: COG0477; multidrug efflux system protein MdtE 931833..933248 Shigella boydii Sb227 3779876 YP_407399.1 CDS baeS NC_007613.1 933245 934648 D Code: T; COG: COG0642; signal transduction histidine-protein kinase BaeS 933245..934648 Shigella boydii Sb227 3779877 YP_407400.1 CDS baeR NC_007613.1 934645 935367 D sensor BaeS; response regulator in two-component regulatory system with BaeS; regulator of RNA synthesis, flagellar biosynthesis, chemotaxis and transport; DNA-binding transcriptional regulator BaeR 934645..935367 Shigella boydii Sb227 3779878 YP_407401.1 CDS SBO_0906 NC_007613.1 935519 935890 D Code: S; COG: COG3422; hypothetical protein 935519..935890 Shigella boydii Sb227 3779879 YP_407402.1 CDS SBO_0907 NC_007613.1 936067 937413 D hypothetical protein 936067..937413 Shigella boydii Sb227 3779880 YP_407403.1 CDS yegQ NC_007613.1 937734 939095 D Code: O; COG: COG0826; hypothetical protein 937734..939095 Shigella boydii Sb227 3779881 YP_407404.1 CDS SBO_0909 NC_007613.1 939425 939757 R hypothetical protein complement(939425..939757) Shigella boydii Sb227 3779882 YP_407405.1 CDS gatR NC_007613.1 941136 941915 R Code: KG; COG: COG1349; galactitol utilization operon repressor complement(941136..941915) Shigella boydii Sb227 3779884 YP_407406.1 CDS gatD NC_007613.1 942015 943055 R Zn-dependent; NAD(P)-binding; catalyzes the formation of tagatose-6-phosphate from galactitol-1-phosphate; galactitol-1-phosphate dehydrogenase complement(942015..943055) Shigella boydii Sb227 3779885 YP_407407.1 CDS gatC NC_007613.1 943103 944458 R Code: G; COG: COG3775; PTS system galactitol-specific transporter subunit IIC complement(943103..944458) Shigella boydii Sb227 3779886 YP_407408.1 CDS gatB NC_007613.1 944462 944746 R phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system galactitol-specific transporter subunit IIB complement(944462..944746) Shigella boydii Sb227 3779887 YP_407409.1 CDS gatA NC_007613.1 944777 945229 R phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system galactitol-specific transporter subunit IIA complement(944777..945229) Shigella boydii Sb227 3779888 YP_407410.2 CDS gatY NC_007613.1 946546 947400 R catalyzes the reversible reaction of dihydroxyacetone phosphate with glyceraldehyde 3-phosphate to produce tagatose 1,6-bisphosphate; in enteric bacteria there are two D-tagatose 1,6-bisphosphate-specific aldolases: KbaY (also called AgaY), involved in catabolism of N-acetyl-galactosamine and D-galactosamine, and GatY which is part of the galactitol catabolism pathway; tagatose-bisphosphate aldolase complement(946546..947400) Shigella boydii Sb227 3779890 YP_407411.2 CDS SBO_0918 NC_007613.1 947708 948760 R catalyzes the formation of glycerone phosphate and D-glyceraldehyde 3-phosphate from D-fructose 1,6-bisphosphate; fructose-bisphosphate aldolase complement(947708..948760) Shigella boydii Sb227 3779891 YP_407412.1 CDS yegT NC_007613.1 949017 950294 D Code: GEPR; COG: COG0477; nucleoside permease 949017..950294 Shigella boydii Sb227 3779892 YP_407413.1 CDS SBO_0920 NC_007613.1 950291 951295 D Code: O; COG: COG1397; hypothetical protein 950291..951295 Shigella boydii Sb227 3779893 YP_407414.1 CDS SBO_0921 NC_007613.1 951292 952257 D Code: G; COG: COG0524; kinase 951292..952257 Shigella boydii Sb227 3779894 YP_407415.1 CDS yegW NC_007613.1 952231 952977 R Code: K; COG: COG2188; transcriptional regulator complement(952231..952977) Shigella boydii Sb227 3779895 YP_407416.1 CDS yegX NC_007613.1 953029 953856 R Code: M; COG: COG3757; hypothetical protein complement(953029..953856) Shigella boydii Sb227 3779386 YP_407417.1 CDS thiD NC_007613.1 953912 954712 R catalyzes the formation of 4-amino-2-methyl-5-diphosphomethylpyrimidine; phosphomethylpyrimidine kinase complement(953912..954712) Shigella boydii Sb227 3779387 YP_407418.1 CDS thiM NC_007613.1 954709 955497 R catalyzes the formation of 4-methyl-5-(2-phosphoethyl)-thiazole and ADP from 4-methyl-5-(2-hydroxyethyl)-thiazole and ATP; hydroxyethylthiazole kinase complement(954709..955497) Shigella boydii Sb227 3779388 YP_407419.1 CDS SBO_0926 NC_007613.1 955865 956752 R Code: L; COG: COG2801; IS629 ORF2 complement(955865..956752) Shigella boydii Sb227 3779389 YP_407420.1 CDS SBO_0927 NC_007613.1 956752 957027 R Code: L; COG: COG2963; IS629 ORF1 complement(956752..957027) Shigella boydii Sb227 3779390 YP_407421.2 CDS mrp NC_007613.1 957291 958400 R Code: D; COG: COG0489; ATPase complement(957291..958400) Shigella boydii Sb227 3779391 YP_407422.1 CDS metG NC_007613.1 958532 960565 D methionine--tRNA ligase; MetRS; adds methionine to tRNA(Met) with cleavage of ATP to AMP and diphosphate; some MetRS enzymes form dimers depending on a C-terminal domain that is also found in other proteins such as Trbp111 in Aquifex aeolicus and the cold-shock protein CsaA from Bacillus subtilis while others do not; four subfamilies exist based on sequence motifs and zinc content; methionyl-tRNA synthetase 958532..960565 Shigella boydii Sb227 3779392 YP_407423.1 CDS SBO_0931 NC_007613.1 960943 961674 R Code: L; COG: COG2801; IS600 ORF2 complement(960943..961674) Shigella boydii Sb227 3779394 YP_407424.1 CDS SBO_0932 NC_007613.1 961815 962117 R Code: L; COG: COG2963; IS600 ORF1 complement(961815..962117) Shigella boydii Sb227 3779395 YP_407425.1 CDS insB NC_007613.1 962921 963424 R Code: L; COG: COG1662; IS1 ORF2 complement(962921..963424) Shigella boydii Sb227 3779397 YP_407426.1 CDS SBO_0935 NC_007613.1 963499 963630 D IS1 encoded protein 963499..963630 Shigella boydii Sb227 3779398 YP_407427.1 CDS SBO_0936 NC_007613.1 963668 964387 R Code: L; COG: COG2801; IS911 ORF2 complement(963668..964387) Shigella boydii Sb227 3779399 YP_407428.1 CDS molR_D NC_007613.1 964776 966806 D hypothetical protein 964776..966806 Shigella boydii Sb227 3779400 YP_407429.1 CDS yehI NC_007613.1 967094 970447 D regulator 967094..970447 Shigella boydii Sb227 3779401 YP_407430.1 CDS yehK NC_007613.1 970509 970871 D hypothetical protein 970509..970871 Shigella boydii Sb227 3779402 YP_407431.1 CDS SBO_0940 NC_007613.1 970815 971024 R IS1 encoded protein complement(970815..971024) Shigella boydii Sb227 3779403 YP_407432.1 CDS insB NC_007613.1 971099 971602 D Code: L; COG: COG1662; IS1 ORF2 971099..971602 Shigella boydii Sb227 3780109 YP_407433.1 CDS yehL NC_007613.1 972115 973257 D Code: R; COG: COG0714; hypothetical protein 972115..973257 Shigella boydii Sb227 3780110 YP_407434.1 CDS yehM NC_007613.1 973268 975547 D hypothetical protein 973268..975547 Shigella boydii Sb227 3780111 YP_407435.1 CDS yehP NC_007613.1 975540 976676 D hypothetical protein 975540..976676 Shigella boydii Sb227 3780112 YP_407436.1 CDS yehQ NC_007613.1 976673 978673 D Code: L; COG: COG2801; hypothetical protein 976673..978673 Shigella boydii Sb227 3780113 YP_407437.1 CDS yehR NC_007613.1 978786 979259 D Code: S; COG: COG4808; hypothetical protein 978786..979259 Shigella boydii Sb227 3780114 YP_407438.1 CDS yehS NC_007613.1 979300 979770 R Code: S; COG: COG4807; hypothetical protein complement(979300..979770) Shigella boydii Sb227 3780115 YP_407439.1 CDS yehT NC_007613.1 979817 980551 R unknown function; when overproduced it confers drug-resistance; two-component response-regulatory protein YehT complement(979817..980551) Shigella boydii Sb227 3780116 YP_407440.1 CDS yehU NC_007613.1 980533 982218 R Code: T; COG: COG3275; 2-component sensor protein complement(980533..982218) Shigella boydii Sb227 3780117 YP_407441.1 CDS SBO_0950 NC_007613.1 982733 982981 D DNA damage-inducible protein 982733..982981 Shigella boydii Sb227 3780118 YP_407442.1 CDS SBO_0951 NC_007613.1 983097 983366 R hypothetical protein complement(983097..983366) Shigella boydii Sb227 3780119 YP_407443.1 CDS SBO_0952 NC_007613.1 983435 984091 D Code: QR; COG: COG0500; hypothetical protein 983435..984091 Shigella boydii Sb227 3780120 YP_407444.1 CDS ipaH_2 NC_007613.1 984407 986050 D Code: S; COG: COG4886; invasion plasmid antigen 984407..986050 Shigella boydii Sb227 3780121 YP_407445.1 CDS SBO_0954 NC_007613.1 986230 986793 R prophage tail protein complement(986230..986793) Shigella boydii Sb227 3780122 YP_407446.1 CDS SBO_0955 NC_007613.1 986804 987895 R tail fiber protein complement(986804..987895) Shigella boydii Sb227 3780123 YP_407447.1 CDS SBO_0956 NC_007613.1 988095 988640 R tail fiber assembly protein complement(988095..988640) Shigella boydii Sb227 3780124 YP_407448.1 CDS SBO_0957 NC_007613.1 988643 989116 R hypothetical protein complement(988643..989116) Shigella boydii Sb227 3780125 YP_407449.1 CDS SBO_0958 NC_007613.1 989185 989850 R tail fiber protein complement(989185..989850) Shigella boydii Sb227 3780126 YP_407450.1 CDS SBO_0959 NC_007613.1 989837 990427 R Code: S; COG: COG3778; tail protein complement(989837..990427) Shigella boydii Sb227 3780127 YP_407451.1 CDS SBO_0960 NC_007613.1 990667 990969 D Code: L; COG: COG2963; IS600 ORF1 990667..990969 Shigella boydii Sb227 3780128 YP_407452.1 CDS SBO_0961 NC_007613.1 991110 991823 D Code: L; COG: COG2801; IS600 ORF2 991110..991823 Shigella boydii Sb227 3779272 YP_407453.1 CDS SBO_0962 NC_007613.1 991864 992622 R hypothetical protein complement(991864..992622) Shigella boydii Sb227 3779273 YP_407454.1 CDS relF NC_007613.1 993070 993225 R polypeptide destructive to membrane potential; RelF complement(993070..993225) Shigella boydii Sb227 3779274 YP_407455.1 CDS SBO_0964 NC_007613.1 993485 993703 R hypothetical protein complement(993485..993703) Shigella boydii Sb227 3779275 YP_407456.1 CDS SBO_0965 NC_007613.1 993877 994293 R hypothetical protein complement(993877..994293) Shigella boydii Sb227 3779276 YP_407457.1 CDS SBO_0966 NC_007613.1 994299 994475 R IS1 encoded protein complement(994299..994475) Shigella boydii Sb227 3779277 YP_407458.1 CDS insB NC_007613.1 994568 995071 D Code: L; COG: COG1662; IS1 ORF2 994568..995071 Shigella boydii Sb227 3779278 YP_407459.1 CDS SBO_0968 NC_007613.1 995167 995622 R hypothetical protein complement(995167..995622) Shigella boydii Sb227 3779279 YP_407460.1 CDS SBO_0969 NC_007613.1 995609 995884 R hypothetical protein complement(995609..995884) Shigella boydii Sb227 3779280 YP_407461.1 CDS SBO_0970 NC_007613.1 995911 996333 R bacteriophage protein complement(995911..996333) Shigella boydii Sb227 3779281 YP_407462.1 CDS SBO_0971 NC_007613.1 996374 997444 R hypothetical protein complement(996374..997444) Shigella boydii Sb227 3779282 YP_407463.1 CDS SBO_0972 NC_007613.1 997516 997941 R hypothetical protein complement(997516..997941) Shigella boydii Sb227 3779283 YP_407464.1 CDS SBO_0973 NC_007613.1 998272 998691 D Code: K; COG: COG1396; transcriptional regulator 998272..998691 Shigella boydii Sb227 3779284 YP_407465.1 CDS insB NC_007613.1 999023 999526 R Code: L; COG: COG1662; IS1 ORF2 complement(999023..999526) Shigella boydii Sb227 3779285 YP_407466.1 CDS SBO_0975 NC_007613.1 999601 999819 D IS1 encoded protein 999601..999819 Shigella boydii Sb227 3779286 YP_407467.1 CDS SBO_0976 NC_007613.1 999816 1001972 D exodeoxyribonuclease VIII 999816..1001972 Shigella boydii Sb227 3779287 YP_407468.1 CDS SBO_0977 NC_007613.1 1002615 1003259 D Code: L; COG: COG0582; integrase for prophage 1002615..1003259 Shigella boydii Sb227 3779288 YP_407469.1 CDS SBO_0979 NC_007613.1 1003431 1004267 D Code: S; COG: COG3228; hypothetical protein 1003431..1004267 Shigella boydii Sb227 3779533 YP_407470.1 CDS SBO_0982 NC_007613.1 1006188 1006463 D Code: L; COG: COG2963; IS629 ORF1 1006188..1006463 Shigella boydii Sb227 3779536 YP_407471.1 CDS SBO_0983 NC_007613.1 1006463 1007350 D Code: L; COG: COG2801; IS629 ORF2 1006463..1007350 Shigella boydii Sb227 3779537 YP_407472.1 CDS dmsC NC_007613.1 1007675 1008538 D Code: R; COG: COG3302; anaerobic dimethyl sulfoxide reductase subunit C 1007675..1008538 Shigella boydii Sb227 3779539 YP_407473.1 CDS ycaC NC_007613.1 1008573 1009154 R Code: Q; COG: COG1335; hypothetical protein complement(1008573..1009154) Shigella boydii Sb227 3779540 YP_407474.1 CDS SBO_0987 NC_007613.1 1009410 1010249 R Code: L; COG: COG2801; IS911 ORF2 complement(1009410..1010249) Shigella boydii Sb227 3779541 YP_407475.1 CDS SBO_0988 NC_007613.1 1010559 1010840 R hypothetical protein complement(1010559..1010840) Shigella boydii Sb227 3779542 YP_407476.2 CDS SBO_0989 NC_007613.1 1010828 1011733 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 1010828..1011733 Shigella boydii Sb227 3779543 YP_407477.1 CDS ycaD NC_007613.1 1012099 1013247 D Code: GEPR; COG: COG0477; MFS family transporter protein 1012099..1013247 Shigella boydii Sb227 3779544 YP_407478.2 CDS SBO_0992 NC_007613.1 1013577 1014482 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(1013577..1014482) Shigella boydii Sb227 3779546 YP_407479.1 CDS SBO_0993 NC_007613.1 1014440 1014805 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(1014440..1014805) Shigella boydii Sb227 3779547 YP_407480.1 CDS SBO_0995 NC_007613.1 1015207 1016445 R function undetermined; similar to glutamate synthase beta subunit and related oxidoreductases which transfer electrons from NADPH to an acceptor protein or protein domain; oxidoreductase complement(1015207..1016445) Shigella boydii Sb227 3779549 YP_407481.1 CDS SBO_0996 NC_007613.1 1016842 1017081 R hypothetical protein complement(1016842..1017081) Shigella boydii Sb227 3779550 YP_407482.1 CDS sanA NC_007613.1 1017084 1017803 R Code: S; COG: COG2949; hypothetical protein complement(1017084..1017803) Shigella boydii Sb227 3779551 YP_407483.1 CDS cdd NC_007613.1 1017953 1018837 R Reclaims exogenous and endogenous cytidine and 2'-deoxycytidine molecules for UMP synthesis; cytidine deaminase complement(1017953..1018837) Shigella boydii Sb227 3779975 YP_407484.1 CDS yohK NC_007613.1 1018967 1019662 R Code: M; COG: COG1346; hypothetical protein complement(1018967..1019662) Shigella boydii Sb227 3779976 YP_407485.1 CDS yohJ NC_007613.1 1019659 1020057 R Code: R; COG: COG1380; hypothetical protein complement(1019659..1020057) Shigella boydii Sb227 3779977 YP_407486.1 CDS insB NC_007613.1 1022549 1023052 R Code: L; COG: COG1662; IS1 ORF2 complement(1022549..1023052) Shigella boydii Sb227 3779980 YP_407487.1 CDS SBO_1004 NC_007613.1 1023127 1023309 D IS1 encoded protein 1023127..1023309 Shigella boydii Sb227 3779981 YP_407488.1 CDS SBO_1005 NC_007613.1 1023759 1023968 R IS1 encoded protein complement(1023759..1023968) Shigella boydii Sb227 3779982 YP_407489.1 CDS insB NC_007613.1 1024043 1024546 D Code: L; COG: COG1662; IS1 ORF2 1024043..1024546 Shigella boydii Sb227 3779983 YP_407490.1 CDS yohF NC_007613.1 1025466 1026227 D Code: IQR; COG: COG1028; acetoin dehydrogenase 1025466..1026227 Shigella boydii Sb227 3779984 YP_407491.1 CDS yohD NC_007613.1 1026357 1026971 R Code: S; COG: COG0586; hypothetical protein complement(1026357..1026971) Shigella boydii Sb227 3779985 YP_407492.1 CDS yohC NC_007613.1 1027081 1027692 D hypothetical protein 1027081..1027692 Shigella boydii Sb227 3779986 YP_407493.1 CDS pbpG NC_007613.1 1027857 1028798 D specifically hydrolyze the DD-diaminopimelate-alanine bonds in high-molecular-mass murein sacculi; Penicillin-binding protein 7; D-alanyl-D-alanine endopeptidase 1027857..1028798 Shigella boydii Sb227 3779987 YP_407494.1 CDS dld NC_007613.1 1028837 1030552 R FAD protein; NADH independent; component of the membrane-bound D-lactate oxidase, FAD-binding, NADH independent; D-lactate dehydrogenase complement(1028837..1030552) Shigella boydii Sb227 3779988 YP_407495.1 CDS bglX NC_007613.1 1030748 1033045 D Code: G; COG: COG1472; beta-D-glucoside glucohydrolase, periplasmic 1030748..1033045 Shigella boydii Sb227 3779989 YP_407496.1 CDS yehZ NC_007613.1 1033297 1034214 D Code: M; COG: COG1732; transport system permease 1033297..1034214 Shigella boydii Sb227 3779990 YP_407497.1 CDS yehY NC_007613.1 1034221 1035378 D Code: E; COG: COG1174; transport system permease 1034221..1035378 Shigella boydii Sb227 3779991 YP_407498.1 CDS yehX NC_007613.1 1035371 1036297 D Code: E; COG: COG1125; ABC transporter ATP-binding protein 1035371..1036297 Shigella boydii Sb227 3779992 YP_407499.1 CDS yehW NC_007613.1 1036302 1037033 D Code: E; COG: COG1174; transport system permease 1036302..1037033 Shigella boydii Sb227 3779993 YP_407500.1 CDS yehV NC_007613.1 1037181 1037828 R Code: K; COG: COG0789; transcriptional regulator complement(1037181..1037828) Shigella boydii Sb227 3780129 YP_407501.1 CDS SBO_1018 NC_007613.1 1038156 1038458 D Code: L; COG: COG2963; IS600 ORF1 1038156..1038458 Shigella boydii Sb227 3780130 YP_407502.1 CDS SBO_1019 NC_007613.1 1038599 1039312 D Code: L; COG: COG2801; IS600 ORF2 1038599..1039312 Shigella boydii Sb227 3780131 YP_407503.1 CDS SBO_1020 NC_007613.1 1039505 1039708 R hypothetical protein complement(1039505..1039708) Shigella boydii Sb227 3780132 YP_407504.1 CDS insB NC_007613.1 1040666 1041169 R Code: L; COG: COG1662; IS1 ORF2 complement(1040666..1041169) Shigella boydii Sb227 3780133 YP_407505.1 CDS SBO_1022 NC_007613.1 1041262 1041429 D IS1 encoded protein 1041262..1041429 Shigella boydii Sb227 3780134 YP_407506.1 CDS SBO_1023 NC_007613.1 1041488 1042087 D Code: M; COG: COG3637; membrane protein 1041488..1042087 Shigella boydii Sb227 3780135 YP_407507.1 CDS SBO_1024 NC_007613.1 1042151 1043566 D tail fiber protein 1042151..1043566 Shigella boydii Sb227 3780136 YP_407508.1 CDS SBO_1025 NC_007613.1 1043517 1044140 D prophage tail protein 1043517..1044140 Shigella boydii Sb227 3780137 YP_407509.1 CDS ipaH_3 NC_007613.1 1044320 1045963 R Code: S; COG: COG4886; invasion plasmid antigen complement(1044320..1045963) Shigella boydii Sb227 3780138 YP_407510.1 CDS ybcY NC_007613.1 1046279 1046710 R Code: QR; COG: COG0500; hypothetical protein complement(1046279..1046710) Shigella boydii Sb227 3780139 YP_407511.1 CDS SBO_1028 NC_007613.1 1046949 1047122 R IS1 encoded protein complement(1046949..1047122) Shigella boydii Sb227 3780140 YP_407512.1 CDS insB NC_007613.1 1047215 1047718 D Code: L; COG: COG1662; IS1 ORF2 1047215..1047718 Shigella boydii Sb227 3780141 YP_407513.1 CDS SBO_1030 NC_007613.1 1048023 1048235 D hypothetical protein 1048023..1048235 Shigella boydii Sb227 3780142 YP_407514.1 CDS SBO_1031 NC_007613.1 1048210 1049049 R Code: L; COG: COG2801; IS911 ORF2 complement(1048210..1049049) Shigella boydii Sb227 3780143 YP_407515.1 CDS yodB NC_007613.1 1050281 1050841 R Code: C; COG: COG3038; cytochrome complement(1050281..1050841) Shigella boydii Sb227 3780144 YP_407516.1 CDS SBO_1033 NC_007613.1 1051154 1051804 R Code: R; COG: COG3443; hypothetical protein complement(1051154..1051804) Shigella boydii Sb227 3780145 YP_407517.1 CDS SBO_1034 NC_007613.1 1052062 1052697 R in Escherichia coli this inner membrane protein was found to anchor the periplasmic catalytic oxidoreductase YedY; sulfite oxidase activity not demonstrated; contains heme; sulfite oxidase subunit YedZ complement(1052062..1052697) Shigella boydii Sb227 3780146 YP_407518.2 CDS yedW NC_007613.1 1054338 1055009 D induced by CusR in the presence of copper; YedW induces the expression of the upstream gene yedV (encoding a sensor kinase) as well as yedW; yedVW is one of four copper regulons found in E. coli; part of the copper homeostasis mechanism; confers resistance to copper and several drugs when induced; transcriptional regulatory protein YedW 1054338..1055009 Shigella boydii Sb227 3779764 YP_407519.1 CDS yedV NC_007613.1 1055009 1056367 D Code: T; COG: COG0642; 2-component sensor protein 1055009..1056367 Shigella boydii Sb227 3779765 YP_407520.1 CDS insB NC_007613.1 1056672 1057175 R Code: L; COG: COG1662; IS1 ORF2 complement(1056672..1057175) Shigella boydii Sb227 3779766 YP_407521.1 CDS SBO_1040 NC_007613.1 1057268 1057438 D IS1 encoded protein 1057268..1057438 Shigella boydii Sb227 3779767 YP_407522.1 CDS SBO_1041 NC_007613.1 1057479 1057976 R outer membrane porin protein C precurser complement(1057479..1057976) Shigella boydii Sb227 3779768 YP_407523.1 CDS SBO_1042 NC_007613.1 1058459 1058899 D IS2 ORF2 1058459..1058899 Shigella boydii Sb227 3779769 YP_407524.1 CDS SBO_1043 NC_007613.1 1059209 1059865 D Code: L; COG: COG2801; IS911 ORF2 1059209..1059865 Shigella boydii Sb227 3779770 YP_407525.1 CDS SBO_1044 NC_007613.1 1060057 1060353 D IS2 ORF2 1060057..1060353 Shigella boydii Sb227 3779771 YP_407526.1 CDS SBO_1045 NC_007613.1 1060935 1061318 D hypothetical protein 1060935..1061318 Shigella boydii Sb227 3779772 YP_407527.1 CDS yedJ NC_007613.1 1061358 1062053 D Code: R; COG: COG1418; hypothetical protein 1061358..1062053 Shigella boydii Sb227 3779773 YP_407528.1 CDS dcm NC_007613.1 1062120 1063538 D Code: L; COG: COG0270; DNA cytosine methylase 1062120..1063538 Shigella boydii Sb227 3779774 YP_407529.1 CDS vsr NC_007613.1 1063519 1063989 D patch repair protein; Code: L; COG: COG3727; DNA mismatch endonuclease 1063519..1063989 Shigella boydii Sb227 3779775 YP_407530.1 CDS yedA NC_007613.1 1063978 1064898 R Code: GER; COG: COG0697; hypothetical protein complement(1063978..1064898) Shigella boydii Sb227 3779776 YP_407531.1 CDS yedI NC_007613.1 1065071 1065988 D Code: S; COG: COG2354; hypothetical protein 1065071..1065988 Shigella boydii Sb227 3779777 YP_407532.1 CDS SBO_1051 NC_007613.1 1066067 1066249 D Code: S; COG: COG5475; hypothetical protein 1066067..1066249 Shigella boydii Sb227 3779778 YP_407533.1 CDS SBO_1053 NC_007613.1 1068112 1068927 R catalyzes the hydrolysis of mannosyl-3-phosphoglycerate to form the osmolyte mannosylglycerate; mannosyl-3-phosphoglycerate phosphatase complement(1068112..1068927) Shigella boydii Sb227 3779780 YP_407534.1 CDS dsrB NC_007613.1 1069603 1069791 D hypothetical protein 1069603..1069791 Shigella boydii Sb227 3779782 YP_407535.1 CDS rcsA NC_007613.1 1069835 1070458 R Code: K; COG: COG2771; positive regulator for ctr capsule biosynthesis, positive transcription factor complement(1069835..1070458) Shigella boydii Sb227 3779935 YP_407536.1 CDS fliR NC_007613.1 1070743 1071528 R FliR, with proteins FliP and FliQ, forms the core of the central channel in the flagella export apparatus; flagellar biosynthesis protein FliR complement(1070743..1071528) Shigella boydii Sb227 3779936 YP_407537.1 CDS fliQ NC_007613.1 1071537 1071806 R with proteins FliP and FliR forms the core of the central channel in the flagella export apparatus; flagellar biosynthesis protein FliQ complement(1071537..1071806) Shigella boydii Sb227 3779937 YP_407538.1 CDS fliO NC_007613.1 1072552 1072917 R with FlhA, FlhB, FliP, FliQ and FliR is one of the membrane components of the flagellar export apparatus; flagellar biosynthesis protein FliO complement(1072552..1072917) Shigella boydii Sb227 3779939 YP_407539.1 CDS fliN NC_007613.1 1072920 1073333 R flagellar biosynthesis, component of motor switch and energizing, enabling rotation and determining its direction; One of three proteins involved in switching the direction of the flagellar rotation; flagellar motor switch protein FliN complement(1072920..1073333) Shigella boydii Sb227 3779940 YP_407540.1 CDS fliM NC_007613.1 1073330 1074334 R flagellar biosynthesis, component of motor switch and energizing, enabling rotation and determining its direction; with FliG and FliN makes up the switch complex which is involved in switching the direction of the flagella rotation; flagellar motor switch protein FliM complement(1073330..1074334) Shigella boydii Sb227 3779941 YP_407541.1 CDS fliL NC_007613.1 1074339 1074803 R interacts with cytoplasmic MS ring of the basal body and may act to stabilize the MotAB complexes which surround the MS ring; flagellar basal body-associated protein FliL complement(1074339..1074803) Shigella boydii Sb227 3779942 YP_407542.1 CDS fliJ NC_007613.1 1076028 1076471 R rod/hook and filament chaperone; flagellar biosynthesis chaperone complement(1076028..1076471) Shigella boydii Sb227 3779944 YP_407543.1 CDS SBO_1067 NC_007613.1 1078602 1079441 D Code: L; COG: COG2801; IS911 ORF2 1078602..1079441 Shigella boydii Sb227 3779946 YP_407544.1 CDS fliF NC_007613.1 1080776 1082434 R flagellar biosynthesis; basal-body MS(membrane and supramembrane)-ring and collar protein; the MS-ring anchors the flagellum to the cytoplasmic membrane; part of the flagellar basal body which consists of four rings L, P, S, and M mounted on a central rod; flagellar MS-ring protein complement(1080776..1082434) Shigella boydii Sb227 3779949 YP_407545.1 CDS fliE NC_007613.1 1082649 1082963 D flagellar biosynthesis; basal-body component, possibly at (MS-ring)-rod junction; forms a junction between the M-ring and FlgB during flagella biosynthesis; flagellar hook-basal body protein FliE 1082649..1082963 Shigella boydii Sb227 3779950 YP_407546.1 CDS SBO_1072 NC_007613.1 1083121 1083291 R IS1 encoded protein complement(1083121..1083291) Shigella boydii Sb227 3779951 YP_407547.1 CDS insB NC_007613.1 1083384 1083887 D Code: L; COG: COG1662; IS1 ORF2 1083384..1083887 Shigella boydii Sb227 3779952 YP_407548.1 CDS SBO_1074 NC_007613.1 1084566 1085714 D Code: L; COG: COG0675; virulence protein 1084566..1085714 Shigella boydii Sb227 3779953 YP_407549.1 CDS yedK NC_007613.1 1085754 1086425 R Code: S; COG: COG2135; hypothetical protein complement(1085754..1086425) Shigella boydii Sb227 3779954 YP_407550.1 CDS yedF NC_007613.1 1086532 1086765 R Code: O; COG: COG0425; hypothetical protein complement(1086532..1086765) Shigella boydii Sb227 3779443 YP_407551.1 CDS yedE NC_007613.1 1086762 1087967 R Code: R; COG: COG2391; inner membrane protein complement(1086762..1087967) Shigella boydii Sb227 3779444 YP_407552.1 CDS yedD NC_007613.1 1088154 1088567 D hypothetical protein 1088154..1088567 Shigella boydii Sb227 3779445 YP_407553.1 CDS amyA NC_007613.1 1088601 1090088 R converts 1,4-alpha-D-glucans to maltodextrin; alpha-amylase complement(1088601..1090088) Shigella boydii Sb227 3779446 YP_407554.1 CDS fliS NC_007613.1 1090532 1090942 R flagellar biosynthesis; repressor of class 3a and 3b operons (RflA activity); flagellin specific chaperone; flagellar protein FliS complement(1090532..1090942) Shigella boydii Sb227 3779448 YP_407555.1 CDS fliD NC_007613.1 1090967 1092373 R flagellar biosynthesis; filament capping protein; enables filament assembly; involved in flagellin assembly; flagellar capping protein complement(1090967..1092373) Shigella boydii Sb227 3779449 YP_407556.1 CDS fliC NC_007613.1 1092639 1094345 D structural flagella protein; individual Salmonella serotypes usually alternate between the production of 2 antigenic forms of flagella, termed phase 1 and phase 2, each specified by separate structural genes; flagellin 1092639..1094345 Shigella boydii Sb227 3779450 YP_407557.1 CDS fliA NC_007613.1 1094665 1095384 D flagellar biosynthesis; regulation of flagellar operons; sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this sigma factor directs late flagellar biosynthesis genes; flagellar biosynthesis sigma factor 1094665..1095384 Shigella boydii Sb227 3779451 YP_407558.1 CDS fliZ NC_007613.1 1095394 1095981 D expression activator of the class 2 type of flagellar operons, essential to achieve maximal cell motility; activator of type 1 fimbrial gene expression; cell density-responsive regulator; FliZ in Salmonella typhimurium induces HilA, an activator of invasion genes necessary to achieve full virulence; flagella biosynthesis protein FliZ 1095394..1095981 Shigella boydii Sb227 3779452 YP_407559.1 CDS fliY NC_007613.1 1096069 1096869 D Code: ET; COG: COG0834; cystine transporter subunit 1096069..1096869 Shigella boydii Sb227 3779453 YP_407560.2 CDS yedO NC_007613.1 1096974 1097960 D catalyzes the formation of pyruvate from D-cysteine; D-cysteine desulfhydrase 1096974..1097960 Shigella boydii Sb227 3779454 YP_407561.1 CDS yecS NC_007613.1 1097975 1098643 D former yecC; Code: E; COG: COG0765; transport system permease 1097975..1098643 Shigella boydii Sb227 3779455 YP_407562.1 CDS yecC NC_007613.1 1098640 1099392 D Code: E; COG: COG1126; amino-acid ABC transporter ATP-binding protein YecC 1098640..1099392 Shigella boydii Sb227 3779456 YP_407563.1 CDS sdiA NC_007613.1 1099622 1100344 D regulates genes involved in cell division; DNA-binding transcriptional activator SdiA 1099622..1100344 Shigella boydii Sb227 3779457 YP_407564.1 CDS yecF NC_007613.1 1100411 1100635 R hypothetical protein complement(1100411..1100635) Shigella boydii Sb227 3779458 YP_407565.1 CDS uvrY NC_007613.1 1101093 1101749 D in Escherichia coli the protein UvrY is part of a two-component system along with BarA that is needed for efficient switching between glycolytic and gluconeogenic carbon sources possibly by regulating the Csr system; in Salmonella SirA and BarA regulate virulence gene expression also via the Csr system; response regulator 1101093..1101749 Shigella boydii Sb227 3779459 YP_407566.2 CDS uvrC NC_007613.1 1101746 1103578 D repair of UV damage to DNA; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrC both incises the 5' and 3' sides of the lesion. The N-terminal half is responsible for the 3' incision and the C-terminal half is responsible for the 5' incision; excinuclease ABC subunit C 1101746..1103578 Shigella boydii Sb227 3779460 YP_407567.1 CDS pgsA NC_007613.1 1103635 1104183 D Code: I; COG: COG0558; phosphatidylglycerophosphate synthetase 1103635..1104183 Shigella boydii Sb227 3779461 YP_407568.1 CDS yecA NC_007613.1 1104833 1105498 D Code: R; COG: COG3318; hypothetical protein 1104833..1105498 Shigella boydii Sb227 3779259 YP_407569.1 CDS tyrP NC_007613.1 1105560 1106771 R Code: E; COG: COG0814; tyrosine-specific transporter complement(1105560..1106771) Shigella boydii Sb227 3779260 YP_407570.1 CDS yecH NC_007613.1 1106962 1107201 D hypothetical protein 1106962..1107201 Shigella boydii Sb227 3779261 YP_407571.1 CDS ftn NC_007613.1 1107239 1107736 R an iron storage protein; cytoplasmic iron storage protein; ferritin complement(1107239..1107736) Shigella boydii Sb227 3779262 YP_407572.1 CDS SBO_1102 NC_007613.1 1107907 1108230 R hypothetical protein complement(1107907..1108230) Shigella boydii Sb227 3779263 YP_407573.1 CDS SBO_1103 NC_007613.1 1108694 1108945 D hypothetical protein 1108694..1108945 Shigella boydii Sb227 3779264 YP_407574.1 CDS yecI NC_007613.1 1109025 1109528 R Code: P; COG: COG1528; ferritin-like protein complement(1109025..1109528) Shigella boydii Sb227 3779265 YP_407575.1 CDS araG NC_007613.1 1111383 1112897 D Part of the ABC transporter complex AraFGH involved in the high affinity transport of arabinose; L-arabinose transporter ATP-binding protein 1111383..1112897 Shigella boydii Sb227 3779267 YP_407576.1 CDS araH NC_007613.1 1112909 1113898 D Part of the ABC transporter complex AraFGH involved in the high affinity transport of arabinose; L-arabinose transporter permease 1112909..1113898 Shigella boydii Sb227 3779268 YP_407577.1 CDS SBO_1110 NC_007613.1 1116112 1116600 D Code: L; COG: COG2801; IS911 ORF2 1116112..1116600 Shigella boydii Sb227 3779271 YP_407578.1 CDS insB NC_007613.1 1116845 1117348 D Code: L; COG: COG1662; IS1 ORF2 1116845..1117348 Shigella boydii Sb227 3779667 YP_407579.1 CDS SBO_1112 NC_007613.1 1117368 1117727 D IS911 ORF2 1117368..1117727 Shigella boydii Sb227 3779668 YP_407580.1 CDS yecG NC_007613.1 1118289 1118717 R ppGpp-dependent; membrane-associated, stress protein produced under conditions of nutrient deprivation, osmotic shock and oxidative stress; universal stress protein UspC complement(1118289..1118717) Shigella boydii Sb227 3779669 YP_407581.1 CDS flhD NC_007613.1 1119487 1119846 D regulator of flagellar biosynthesis, acting on class 2 operons; transcriptional initiation factor; with FlhC is involved in the activation of class 2 flagellar genes and is involved in the regulation of a number of other genetic systems; transcriptional activator FlhD 1119487..1119846 Shigella boydii Sb227 3779670 YP_407582.1 CDS flhC NC_007613.1 1119849 1120415 D regulator of flagellar biosynthesis acting on class 2 operons; transcription initiation factor; With FlhD is involved in the activation of class 2 flagellar genes and as well as a number of other genetic systems; transcriptional activator FlhC 1119849..1120415 Shigella boydii Sb227 3779671 YP_407583.1 CDS cheR NC_007613.1 1120601 1121365 D response regulator for chemotaxis; methylates the MCP; chemotaxis methyltransferase CheR 1120601..1121365 Shigella boydii Sb227 3779672 YP_407584.1 CDS cheB NC_007613.1 1121368 1122306 D response regulator for chemotaxis (cheA sensor); Code: NT; COG: COG2201; protein methylesterase 1121368..1122306 Shigella boydii Sb227 3779673 YP_407585.1 CDS cheY NC_007613.1 1122321 1122710 D transmits chemoreceptor signals to flagelllar motor components; chemotaxis regulator that, when phosphorylated, interacts with the flagellar motor causing the flagella to spin clockwise which causes the cell to tumble; chemotaxis regulatory protein CheY 1122321..1122710 Shigella boydii Sb227 3779674 YP_407586.1 CDS cheZ NC_007613.1 1122721 1123365 D chemotactic response; antagonist of CheY as switch regulator; cytosolic phosphatase which functions in the chemotaxis signal transduction complex by controlling the level of phosphorylated CheY through dephosphorylation; chemotaxis regulator CheZ 1122721..1123365 Shigella boydii Sb227 3779675 YP_407587.1 CDS flhB NC_007613.1 1123520 1124551 D membrane protein responsible for substrate specificity switching from rod/hook-type export to filament-type export; flagellar biosynthesis protein FlhB 1123520..1124551 Shigella boydii Sb227 3779676 YP_407588.1 CDS flhA NC_007613.1 1124544 1126622 D flagellar biosynthesis; possible export of flagellar proteins; membrane protein involved in the flagellar export apparatus; flagellar biosynthesis protein FlhA 1124544..1126622 Shigella boydii Sb227 3779677 YP_407589.1 CDS flhE NC_007613.1 1126622 1127014 D flagellar protein 1126622..1127014 Shigella boydii Sb227 3779678 YP_407590.1 CDS yecT NC_007613.1 1127134 1127643 R Code: S; COG: COG3755; hypothetical protein complement(1127134..1127643) Shigella boydii Sb227 3779679 YP_407591.1 CDS argS NC_007613.1 1127799 1129532 R catalyzes a two-step reaction, first charging an arginine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class-I aminoacyl-tRNA synthetase; arginyl-tRNA synthetase complement(1127799..1129532) Shigella boydii Sb227 3779680 YP_407592.1 CDS yecM NC_007613.1 1129742 1130314 D Code: S; COG: COG3102; hypothetical protein 1129742..1130314 Shigella boydii Sb227 3779681 YP_407593.1 CDS cutC NC_007613.1 1130328 1131074 D Code: P; COG: COG3142; copper homeostasis protein CutC 1130328..1131074 Shigella boydii Sb227 3779682 YP_407594.1 CDS SBO_1128 NC_007613.1 1132058 1132261 R IS1 encoded protein complement(1132058..1132261) Shigella boydii Sb227 3779684 YP_407595.1 CDS insB NC_007613.1 1132336 1132839 D Code: L; COG: COG1662; IS1 ORF2 1132336..1132839 Shigella boydii Sb227 3779685 YP_407596.1 CDS yecP NC_007613.1 1134598 1135569 R Code: QR; COG: COG0500; hypothetical protein complement(1134598..1135569) Shigella boydii Sb227 3780090 YP_407597.1 CDS yecO NC_007613.1 1135566 1136309 R Code: QR; COG: COG0500; hypothetical protein complement(1135566..1136309) Shigella boydii Sb227 3780091 YP_407598.1 CDS yecN NC_007613.1 1136350 1136670 R Code: R; COG: COG3788; hypothetical protein complement(1136350..1136670) Shigella boydii Sb227 3780092 YP_407599.1 CDS SBO_1134 NC_007613.1 1137080 1137454 D Code: L; COG: COG2801; IS911 ORF2 1137080..1137454 Shigella boydii Sb227 3780093 YP_407600.1 CDS SBO_1135 NC_007613.1 1137550 1137924 D IS911 ORF2 1137550..1137924 Shigella boydii Sb227 3780094 YP_407601.1 CDS SBO_1136 NC_007613.1 1138087 1138296 D hypothetical protein 1138087..1138296 Shigella boydii Sb227 3780095 YP_407602.1 CDS SBO_1137 NC_007613.1 1138702 1140306 D hypothetical protein 1138702..1140306 Shigella boydii Sb227 3780096 YP_407603.1 CDS SBO_1138 NC_007613.1 1140677 1141138 D hypothetical protein 1140677..1141138 Shigella boydii Sb227 3780097 YP_407604.1 CDS SBO_1139 NC_007613.1 1141135 1141341 D Code: K; COG: COG3423; transcriptional regulator 1141135..1141341 Shigella boydii Sb227 3780098 YP_407605.1 CDS SBO_1140 NC_007613.1 1143130 1143561 D Code: L; COG: COG0582; integrase 1143130..1143561 Shigella boydii Sb227 3780099 YP_407606.1 CDS SBO_1141 NC_007613.1 1143638 1143913 D Code: L; COG: COG2963; IS629 ORF1 1143638..1143913 Shigella boydii Sb227 3780100 YP_407607.1 CDS SBO_1142 NC_007613.1 1143913 1144800 D Code: L; COG: COG2801; IS629 ORF2 1143913..1144800 Shigella boydii Sb227 3780101 YP_407608.1 CDS SBO_1143 NC_007613.1 1145877 1146218 R hypothetical protein complement(1145877..1146218) Shigella boydii Sb227 3780102 YP_407609.1 CDS SBO_1145 NC_007613.1 1147102 1147476 R Code: R; COG: COG2372; hypothetical protein complement(1147102..1147476) Shigella boydii Sb227 3780104 YP_407610.1 CDS holE NC_007613.1 1147615 1147845 D DNA polymerase III subunit theta 1147615..1147845 Shigella boydii Sb227 3780105 YP_407611.1 CDS SBO_1147 NC_007613.1 1147947 1148603 D Code: R; COG: COG0388; hypothetical protein 1147947..1148603 Shigella boydii Sb227 3780106 YP_407612.1 CDS SBO_1148 NC_007613.1 1148627 1149289 D 3'-5' exonuclease activity on single or double-strand DNA; exodeoxyribonuclease X 1148627..1149289 Shigella boydii Sb227 3780107 YP_407613.1 CDS SBO_1149 NC_007613.1 1149396 1150283 R Code: L; COG: COG2801; IS629 ORF2 complement(1149396..1150283) Shigella boydii Sb227 3780108 YP_407614.1 CDS SBO_1150 NC_007613.1 1150283 1150558 R Code: L; COG: COG2963; IS629 ORF1 complement(1150283..1150558) Shigella boydii Sb227 3780283 YP_407615.1 CDS SBO_1151 NC_007613.1 1151741 1152043 D Code: L; COG: COG2963; IS600 ORF1 1151741..1152043 Shigella boydii Sb227 3780284 YP_407616.1 CDS SBO_1152 NC_007613.1 1152523 1152915 D IS600 ORF2 1152523..1152915 Shigella boydii Sb227 3780285 YP_407617.1 CDS yebE NC_007613.1 1154135 1154794 R Code: S; COG: COG2979; hypothetical protein complement(1154135..1154794) Shigella boydii Sb227 3780287 YP_407618.1 CDS yebF NC_007613.1 1155121 1155489 R secreted protein; unknown function; hypothetical protein complement(1155121..1155489) Shigella boydii Sb227 3780288 YP_407619.1 CDS yebG NC_007613.1 1155578 1155838 R Code: S; COG: COG3141; DNA damage-inducible protein YebG complement(1155578..1155838) Shigella boydii Sb227 3780289 YP_407620.1 CDS purT NC_007613.1 1155972 1157150 D non-folate utilizing enzyme, catalyzes the production of beta-formyl glycinamide ribonucleotide from formate, ATP, and beta-GAR and a side reaction producing acetyl phosphate and ADP from acetate and ATP; involved in de novo purine biosynthesis; phosphoribosylglycinamide formyltransferase 2 1155972..1157150 Shigella boydii Sb227 3780290 YP_407621.1 CDS eda NC_007613.1 1157206 1157847 R 2-keto-4-hydroxyglutarate aldolase; catalyzes the formation of pyruvate and glyoxylate from 4-hydroxy-2-oxoglutarate; or pyruvate and D-glyceraldehyde 3-phosphate from 2-dehydro-3-deoxy-D-glyconate 6-phosphate; keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase complement(1157206..1157847) Shigella boydii Sb227 3780291 YP_407622.1 CDS edd NC_007613.1 1157884 1159695 R catalyzes the formation of 2-dehydro-3-deoxy-6-phospho-D-gluconate from 6-phospho-D-gluconate; phosphogluconate dehydratase complement(1157884..1159695) Shigella boydii Sb227 3780292 YP_407623.1 CDS zwf NC_007613.1 1159930 1161405 R catalyzes the formation of D-glucono-1,5-lactone 6-phosphate from D-glucose 6-phosphate; glucose-6-phosphate 1-dehydrogenase complement(1159930..1161405) Shigella boydii Sb227 3780293 YP_407624.1 CDS yebK NC_007613.1 1161743 1162612 D Represses the expression of the zwf, eda, glp and gap; DNA-binding transcriptional regulator HexR 1161743..1162612 Shigella boydii Sb227 3780294 YP_407625.1 CDS pykA NC_007613.1 1162740 1164182 D glucose-stimulated; catalyzes the formation of phosphoenolpyruvate from pyruvate; pyruvate kinase 1162740..1164182 Shigella boydii Sb227 3780295 YP_407626.1 CDS insB NC_007613.1 1164772 1165275 D Code: L; COG: COG1662; IS1 ORF2 1164772..1165275 Shigella boydii Sb227 3780296 YP_407627.1 CDS ycgK NC_007613.1 1165286 1165642 R hypothetical protein complement(1165286..1165642) Shigella boydii Sb227 3780297 YP_407628.1 CDS ycgL NC_007613.1 1165851 1166177 D Code: S; COG: COG3100; hypothetical protein 1165851..1166177 Shigella boydii Sb227 3780298 YP_407629.1 CDS SBO_1166 NC_007613.1 1166249 1166908 D Code: Q; COG: COG0179; hypothetical protein 1166249..1166908 Shigella boydii Sb227 3780299 YP_407630.2 CDS ycgN NC_007613.1 1167000 1167446 D Code: S; COG: COG2983; hypothetical protein 1167000..1167446 Shigella boydii Sb227 3780300 YP_407631.1 CDS SBO_1168 NC_007613.1 1167477 1167749 R IS1 encoded protein complement(1167477..1167749) Shigella boydii Sb227 3780301 YP_407632.1 CDS insB NC_007613.1 1167824 1168327 D Code: L; COG: COG1662; IS1 ORF2 1167824..1168327 Shigella boydii Sb227 3780302 YP_407633.1 CDS insB NC_007613.1 1168607 1169110 R Code: L; COG: COG1662; IS1 ORF2 complement(1168607..1169110) Shigella boydii Sb227 3779687 YP_407634.1 CDS SBO_1171 NC_007613.1 1169346 1171004 D alpha-mannosidase 1169346..1171004 Shigella boydii Sb227 3779688 YP_407635.1 CDS msbB NC_007613.1 1171093 1172064 R suppressor of htrB; heat shock protein; Transfers myristate or laurate, activated on ACP, to the lipid IVA moiety of (KDO)2-(lauroyl)-lipid IVA; lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase complement(1171093..1172064) Shigella boydii Sb227 3779689 YP_407636.1 CDS yebA NC_007613.1 1172184 1173506 R Code: M; COG: COG0739; hypothetical protein complement(1172184..1173506) Shigella boydii Sb227 3779690 YP_407637.2 CDS znuA NC_007613.1 1173522 1174454 R involved in transport of zinc(II) with ZnuA and C; high-affinity zinc transporter periplasmic protein complement(1173522..1174454) Shigella boydii Sb227 3779691 YP_407638.1 CDS znuC NC_007613.1 1174533 1175288 D involved in transport of zinc(II) with ZnuA and C; high-affinity zinc transporter ATPase 1174533..1175288 Shigella boydii Sb227 3779692 YP_407639.1 CDS znuB NC_007613.1 1175285 1176070 D involved in transport of zinc(II) with ZnuA and C; high-affinity zinc transporter membrane protein 1175285..1176070 Shigella boydii Sb227 3779693 YP_407640.1 CDS ruvB NC_007613.1 1176120 1177130 R branch migration; repair; promotes strand exchange during homologous recombination; RuvAB complex promotes branch migration; RuvABC complex scans the DNA during branch migration and resolves Holliday junctions at consensus sequences; forms hexameric rings around opposite DNA arms; requires ATP for branch migration and orientation of RuvAB complex determines direction of migration; Holliday junction DNA helicase RuvB complement(1176120..1177130) Shigella boydii Sb227 3779694 YP_407641.1 CDS ruvA NC_007613.1 1177139 1177750 R branch migration; repair; plays an essential role in ATP-dependent branch migration of the Holliday junction; Holliday junction DNA helicase RuvA complement(1177139..1177750) Shigella boydii Sb227 3779695 YP_407642.1 CDS SBO_1179 NC_007613.1 1178071 1178247 R IS1 encoded protein complement(1178071..1178247) Shigella boydii Sb227 3779696 YP_407643.1 CDS SBO_1180 NC_007613.1 1178545 1178910 D IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein 1178545..1178910 Shigella boydii Sb227 3779697 YP_407644.1 CDS SBO_1181 NC_007613.1 1178934 1179314 D IS2 ORF2 1178934..1179314 Shigella boydii Sb227 3779698 YP_407645.1 CDS SBO_1182 NC_007613.1 1179280 1179759 D Code: L; COG: COG2801; IS2 ORF2 1179280..1179759 Shigella boydii Sb227 3779699 YP_407646.1 CDS insB NC_007613.1 1179734 1180165 D Code: L; COG: COG1662; IS1 ORF2 1179734..1180165 Shigella boydii Sb227 3779700 YP_407647.1 CDS SBO_1184 NC_007613.1 1180252 1180773 R Code: L; COG: COG2801; IS911 ORF2 complement(1180252..1180773) Shigella boydii Sb227 3779701 YP_407648.1 CDS SBO_1185 NC_007613.1 1180742 1181092 R Code: L; COG: COG2801; IS911 ORF2 complement(1180742..1181092) Shigella boydii Sb227 3779702 YP_407649.1 CDS ruvC NC_007613.1 1181574 1182095 R resolution of structures; repair; endonuclease; resolves Holliday structures; forms a complex of RuvABC; the junction binding protein RuvA forms a hexameric ring along with the RuvB helicase and catalyzes branch migration; RuvC then interacts with RuvAB to resolve the Holliday junction by nicking DNA strands of like polarity; Holliday junction resolvase complement(1181574..1182095) Shigella boydii Sb227 3779703 YP_407650.1 CDS yebC NC_007613.1 1182130 1182870 R Code: S; COG: COG0217; hypothetical protein complement(1182130..1182870) Shigella boydii Sb227 3779704 YP_407651.1 CDS ntpA NC_007613.1 1182899 1183351 R converts dATP to dAMP and pyrophosphate; dATP pyrophosphohydrolase complement(1182899..1183351) Shigella boydii Sb227 3779705 YP_407652.1 CDS aspS NC_007613.1 1183469 1185241 R catalyzes a two-step reaction, first charging an aspartate molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; contains discriminating and non-discriminating subtypes; aspartyl-tRNA synthetase complement(1183469..1185241) Shigella boydii Sb227 3780149 YP_407653.1 CDS SBO_1190 NC_007613.1 1185518 1185805 D hypothetical protein 1185518..1185805 Shigella boydii Sb227 3780150 YP_407654.1 CDS SBO_1191 NC_007613.1 1185997 1187193 D Code: L; COG: COG3547; ISSfl2 ORF 1185997..1187193 Shigella boydii Sb227 3780151 YP_407655.1 CDS yecD NC_007613.1 1187232 1187567 D Code: Q; COG: COG1335; hypothetical protein 1187232..1187567 Shigella boydii Sb227 3780152 YP_407656.1 CDS SBO_1193 NC_007613.1 1187922 1188170 D hypothetical protein 1187922..1188170 Shigella boydii Sb227 3780153 YP_407657.1 CDS SBO_1194 NC_007613.1 1188772 1188984 R hypothetical protein complement(1188772..1188984) Shigella boydii Sb227 3780154 YP_407658.1 CDS SBO_1195 NC_007613.1 1189658 1190245 R tail fiber protein complement(1189658..1190245) Shigella boydii Sb227 3780155 YP_407659.1 CDS SBO_1196 NC_007613.1 1190211 1191065 R tail component encoded by cryptic prophage CP-933M complement(1190211..1191065) Shigella boydii Sb227 3780156 YP_407660.1 CDS SBO_1197 NC_007613.1 1191130 1191729 R Code: M; COG: COG3637; membrane protein complement(1191130..1191729) Shigella boydii Sb227 3780157 YP_407661.1 CDS SBO_1198 NC_007613.1 1191797 1195270 R Code: S; COG: COG4733; host specificity protein complement(1191797..1195270) Shigella boydii Sb227 3780158 YP_407662.1 CDS SBO_1199 NC_007613.1 1195511 1196125 R Code: S; COG: COG4723; tail component complement(1195511..1196125) Shigella boydii Sb227 3780159 YP_407663.1 CDS SBO_1200 NC_007613.1 1196089 1196907 R Code: M; COG: COG0791; tail assembly protein complement(1196089..1196907) Shigella boydii Sb227 3780160 YP_407664.1 CDS SBO_1201 NC_007613.1 1196843 1197541 R Code: S; COG: COG4672; minor tail protein complement(1196843..1197541) Shigella boydii Sb227 3780161 YP_407665.1 CDS SBO_1202 NC_007613.1 1197875 1201036 R Code: S; COG: COG5281; tail length tape measure protein complement(1197875..1201036) Shigella boydii Sb227 3780162 YP_407666.1 CDS SBO_1203 NC_007613.1 1201241 1201873 D Code: L; COG: COG3436; hypothetical protein 1201241..1201873 Shigella boydii Sb227 3780163 YP_407667.1 CDS SBO_1204 NC_007613.1 1201880 1203481 D Code: L; COG: COG3436; ISSfl3 orfC 1201880..1203481 Shigella boydii Sb227 3780164 YP_407668.1 CDS SBO_1205 NC_007613.1 1204229 1204603 R tail assembly chaperone complement(1204229..1204603) Shigella boydii Sb227 3780165 YP_407669.1 CDS SBO_1206 NC_007613.1 1204618 1205022 R major tail subunit complement(1204618..1205022) Shigella boydii Sb227 3780166 YP_407670.1 CDS insB NC_007613.1 1205024 1205527 R Code: L; COG: COG1662; IS1 ORF2 complement(1205024..1205527) Shigella boydii Sb227 3780167 YP_407671.1 CDS pocR NC_007613.1 1205763 1206689 D Code: TK; COG: COG4936; pdu/cob regulatory protein 1205763..1206689 Shigella boydii Sb227 3780168 YP_407672.1 CDS SBO_1209 NC_007613.1 1207094 1207915 R Code: L; COG: COG2801; IS911 ORF2 complement(1207094..1207915) Shigella boydii Sb227 3779566 YP_407673.1 CDS cobS NC_007613.1 1209534 1210277 D catalyzes the formation of adenosylcobalamin from Ado-cobinamide-GDP and alpha-ribazole; cobalamin synthase 1209534..1210277 Shigella boydii Sb227 3779568 YP_407674.1 CDS cobT NC_007613.1 1210343 1211368 D catalyzes the synthesis of alpha-ribazole-5'-phosphate from nicotinate mononucleotide and 5,6-dimethylbenzimidazole; nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase 1210343..1211368 Shigella boydii Sb227 3779569 YP_407675.1 CDS erfK NC_007613.1 1211433 1212365 D Code: S; COG: COG1376; hypothetical protein 1211433..1212365 Shigella boydii Sb227 3779570 YP_407676.1 CDS SBO_1217 NC_007613.1 1213970 1214686 D Code: S; COG: COG0217; hypothetical protein 1213970..1214686 Shigella boydii Sb227 3779574 YP_407677.1 CDS SBO_1219 NC_007613.1 1215318 1216076 R hypothetical protein complement(1215318..1216076) Shigella boydii Sb227 3779576 YP_407678.1 CDS SBO_1221 NC_007613.1 1217187 1218449 D Code: L; COG: COG0582; P4-type integrase 1217187..1218449 Shigella boydii Sb227 3779578 YP_407679.1 CDS SBO_1222 NC_007613.1 1219168 1219650 R Code: L; COG: COG0582; integrase complement(1219168..1219650) Shigella boydii Sb227 3779579 YP_407680.1 CDS SBO_1223 NC_007613.1 1219696 1220583 R Code: L; COG: COG2801; IS629 ORF2 complement(1219696..1220583) Shigella boydii Sb227 3779580 YP_407681.1 CDS SBO_1224 NC_007613.1 1220583 1220858 R Code: L; COG: COG2963; IS629 ORF1 complement(1220583..1220858) Shigella boydii Sb227 3779581 YP_407682.1 CDS SBO_1225 NC_007613.1 1221349 1222062 D Code: L; COG: COG2801; IS600 ORF2 1221349..1222062 Shigella boydii Sb227 3779994 YP_407683.1 CDS SBO_1226 NC_007613.1 1222114 1222950 D Code: T; COG: COG2200; hypothetical protein 1222114..1222950 Shigella boydii Sb227 3779995 YP_407684.1 CDS SBO_1227 NC_007613.1 1223258 1224346 R Code: L; COG: COG3547; transposase complement(1223258..1224346) Shigella boydii Sb227 3779996 YP_407685.1 CDS yoaE NC_007613.1 1224473 1226023 R Code: R; COG: COG1253; transporter complement(1224473..1226023) Shigella boydii Sb227 3779997 YP_407686.1 CDS manX NC_007613.1 1226486 1227457 D Code: G; COG: COG3444; PTS mannose-specific transporter subunit IIAB 1226486..1227457 Shigella boydii Sb227 3779998 YP_407687.1 CDS manY NC_007613.1 1227520 1228320 D Code: G; COG: COG3715; PTS mannose-specific transporter subunit IIC 1227520..1228320 Shigella boydii Sb227 3779999 YP_407688.1 CDS manZ NC_007613.1 1228324 1229184 D hosphoenolpyruvate-dependent sugar phosphotransferase system catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IID with IIC forms the translocation channel; PTS system mannose-specific transporter subunit IID 1228324..1229184 Shigella boydii Sb227 3780000 YP_407689.1 CDS SBO_1232 NC_007613.1 1229239 1229715 D Code: S; COG: COG4811; hypothetical protein 1229239..1229715 Shigella boydii Sb227 3780001 YP_407690.1 CDS insB NC_007613.1 1229938 1230441 D Code: L; COG: COG1662; IS1 ORF2 1229938..1230441 Shigella boydii Sb227 3780002 YP_407691.1 CDS rrmA NC_007613.1 1231468 1232277 R methylates the guanosine in position 745 of 23S rRNA; required for translation and cell growth; 23S rRNA methyltransferase A complement(1231468..1232277) Shigella boydii Sb227 3780004 YP_407692.1 CDS cspC NC_007613.1 1232443 1232652 R Code: K; COG: COG1278; cold shock-like protein CspC complement(1232443..1232652) Shigella boydii Sb227 3780005 YP_407693.1 CDS SBO_1237 NC_007613.1 1232665 1232808 R hypothetical protein complement(1232665..1232808) Shigella boydii Sb227 3780006 YP_407694.1 CDS SBO_1238 NC_007613.1 1233478 1233765 R hypothetical protein complement(1233478..1233765) Shigella boydii Sb227 3780007 YP_407695.1 CDS SBO_1239 NC_007613.1 1233840 1233983 R hypothetical protein complement(1233840..1233983) Shigella boydii Sb227 3780008 YP_407696.1 CDS SBO_1240 NC_007613.1 1234524 1235315 R Code: K; COG: COG1414; regulator complement(1234524..1235315) Shigella boydii Sb227 3780009 YP_407697.1 CDS SBO_1241 NC_007613.1 1235399 1236865 D Code: GEPR; COG: COG0477; transporter 1235399..1236865 Shigella boydii Sb227 3780010 YP_407698.1 CDS SBO_1242 NC_007613.1 1236900 1237538 R IS4 orf complement(1236900..1237538) Shigella boydii Sb227 3780011 YP_407699.1 CDS SBO_1243 NC_007613.1 1237657 1238247 R IS4 orf complement(1237657..1238247) Shigella boydii Sb227 3779043 YP_407700.1 CDS htpX NC_007613.1 1238351 1239232 R integral membrane protein; metalloprotease; heat shock protein HtpX complement(1238351..1239232) Shigella boydii Sb227 3779044 YP_407701.1 CDS prc NC_007613.1 1239424 1241472 R Involved in the cleavage of a C-terminal peptide of 11 residues from the precursor form of penicillin-binding protein 3; carboxy-terminal protease complement(1239424..1241472) Shigella boydii Sb227 3779045 YP_407702.1 CDS proQ NC_007613.1 1241492 1242190 R affects solute and DNA transport through an unknown mechanism; solute/DNA competence effector complement(1241492..1242190) Shigella boydii Sb227 3779046 YP_407703.1 CDS SBO_1247 NC_007613.1 1242287 1242838 R Code: T; COG: COG1956; hypothetical protein complement(1242287..1242838) Shigella boydii Sb227 3779047 YP_407704.1 CDS SBO_1248 NC_007613.1 1242914 1244197 D Code: S; COG: COG2995; hypothetical protein 1242914..1244197 Shigella boydii Sb227 3779048 YP_407705.1 CDS SBO_1249 NC_007613.1 1244160 1246799 D Code: R; COG: COG3008; hypothetical protein 1244160..1246799 Shigella boydii Sb227 3779049 YP_407706.1 CDS yebU NC_007613.1 1246873 1248318 D in Escherichia coli this enzyme specifically methylates C1407 of the 16S rRNA; rRNA (cytosine-C(5)-)-methyltransferase RsmF 1246873..1248318 Shigella boydii Sb227 3779050 YP_407707.1 CDS SBO_1251 NC_007613.1 1248421 1248672 D hypothetical protein 1248421..1248672 Shigella boydii Sb227 3779051 YP_407708.1 CDS SBO_1252 NC_007613.1 1248693 1248968 D hypothetical protein 1248693..1248968 Shigella boydii Sb227 3779052 YP_407709.1 CDS pphA NC_007613.1 1248969 1249628 R signals protein misfolding; Plays a key role in signaling protein misfolding via the cpxR/cpxA transducing system; modulates the phosphorylated status of many phosphoproteins; serine/threonine protein phosphatase 1 complement(1248969..1249628) Shigella boydii Sb227 3779053 YP_407710.1 CDS SBO_1254 NC_007613.1 1250157 1250975 R Code: L; COG: COG2801; IS600 ORF2 complement(1250157..1250975) Shigella boydii Sb227 3779054 YP_407711.1 CDS SBO_1255 NC_007613.1 1251011 1251313 R Code: L; COG: COG2963; IS600 ORF1 complement(1251011..1251313) Shigella boydii Sb227 3779055 YP_407712.1 CDS ipaH_4 NC_007613.1 1251634 1253349 D Code: S; COG: COG4886; invasion plasmid antigen 1251634..1253349 Shigella boydii Sb227 3779056 YP_407713.1 CDS SBO_1257 NC_007613.1 1253707 1253994 D Code: L; COG: COG2963; IS600 ORF1 1253707..1253994 Shigella boydii Sb227 3779057 YP_407714.1 CDS SBO_1258 NC_007613.1 1254044 1254862 D Code: L; COG: COG2801; IS600 ORF2 1254044..1254862 Shigella boydii Sb227 3779058 YP_407715.1 CDS SBO_1259 NC_007613.1 1255391 1255729 D Code: L; COG: COG2963; ISSfl4 ORF1 1255391..1255729 Shigella boydii Sb227 3779059 YP_407716.1 CDS SBO_1260 NC_007613.1 1255769 1256659 R Code: L; COG: COG2801; IS629 ORF2 complement(1255769..1256659) Shigella boydii Sb227 3779060 YP_407717.1 CDS SBO_1261 NC_007613.1 1256656 1256982 R Code: L; COG: COG2963; IS629 ORF1 complement(1256656..1256982) Shigella boydii Sb227 3779061 YP_407718.1 CDS SBO_1262 NC_007613.1 1257063 1257413 D Code: L; COG: COG3436; protein encoded within IS 1257063..1257413 Shigella boydii Sb227 3779062 YP_407719.1 CDS SBO_1263 NC_007613.1 1257633 1257971 D protein encoded within IS 1257633..1257971 Shigella boydii Sb227 3779063 YP_407720.1 CDS SBO_1264 NC_007613.1 1258041 1258457 D protein encoded within IS 1258041..1258457 Shigella boydii Sb227 3779064 YP_407721.1 CDS SBO_1265 NC_007613.1 1258470 1259036 D protein encoded within IS 1258470..1259036 Shigella boydii Sb227 3779065 YP_407722.1 CDS insB NC_007613.1 1259056 1259532 D Code: L; COG: COG1662; IS1 ORF2 1259056..1259532 Shigella boydii Sb227 3779066 YP_407723.1 CDS SBO_1267 NC_007613.1 1259631 1260449 R Code: L; COG: COG2801; IS600 ORF2 complement(1259631..1260449) Shigella boydii Sb227 3779067 YP_407724.1 CDS SBO_1268 NC_007613.1 1260499 1260786 R Code: L; COG: COG2963; IS600 ORF1 complement(1260499..1260786) Shigella boydii Sb227 3779068 YP_407725.1 CDS SBO_1269 NC_007613.1 1260843 1261607 R hypothetical protein complement(1260843..1261607) Shigella boydii Sb227 3779069 YP_407726.1 CDS sdaA NC_007613.1 1261738 1263102 R Code: E; COG: COG1760; L-serine deaminase complement(1261738..1263102) Shigella boydii Sb227 3779070 YP_407727.1 CDS yeaB NC_007613.1 1263286 1263864 R Code: LR; COG: COG0494; hypothetical protein complement(1263286..1263864) Shigella boydii Sb227 3779071 YP_407728.1 CDS pabB NC_007613.1 1263868 1265229 R Code: EH; COG: COG0147; p-aminobenzoate synthetase, component I complement(1263868..1265229) Shigella boydii Sb227 3779072 YP_407729.1 CDS SBO_1273 NC_007613.1 1265303 1265482 D Code: S; COG: COG3140; hypothetical protein 1265303..1265482 Shigella boydii Sb227 3779073 YP_407730.1 CDS insB NC_007613.1 1265538 1266041 R Code: L; COG: COG1662; IS1 ORF2 complement(1265538..1266041) Shigella boydii Sb227 3779074 YP_407731.1 CDS SBO_1275 NC_007613.1 1266116 1266298 D IS1 encoded protein 1266116..1266298 Shigella boydii Sb227 3779075 YP_407732.1 CDS SBO_1276 NC_007613.1 1266379 1266738 R hypothetical protein complement(1266379..1266738) Shigella boydii Sb227 3779076 YP_407733.1 CDS SBO_1277 NC_007613.1 1266878 1267132 R IS1 encoded protein complement(1266878..1267132) Shigella boydii Sb227 3779077 YP_407734.1 CDS insB NC_007613.1 1267207 1267710 D Code: L; COG: COG1662; IS1 ORF2 1267207..1267710 Shigella boydii Sb227 3779078 YP_407735.1 CDS SBO_1279 NC_007613.1 1267877 1268269 R Code: J; COG: COG0251; hypothetical protein complement(1267877..1268269) Shigella boydii Sb227 3779079 YP_407736.1 CDS SBO_1280 NC_007613.1 1268353 1270263 D Code: KL; COG: COG1199; hypothetical protein 1268353..1270263 Shigella boydii Sb227 3779080 YP_407737.1 CDS yeaZ NC_007613.1 1270321 1271016 D Code: O; COG: COG1214; hypothetical protein 1270321..1271016 Shigella boydii Sb227 3779081 YP_407738.1 CDS SBO_1282 NC_007613.1 1271056 1271637 D Code: M; COG: COG3065; outer membrane protein 1271056..1271637 Shigella boydii Sb227 3779629 YP_407739.1 CDS fadD NC_007613.1 1271842 1273527 D Activates fatty acids by binding to coenzyme A; long-chain-fatty-acid--CoA ligase 1271842..1273527 Shigella boydii Sb227 3779630 YP_407740.1 CDS rnd NC_007613.1 1273596 1274723 D processes tRNA precursor; Code: J; COG: COG0349; ribonuclease D 1273596..1274723 Shigella boydii Sb227 3779631 YP_407741.1 CDS yeaX NC_007613.1 1274777 1275742 R Code: C; COG: COG1018; diogenase subunit beta complement(1274777..1275742) Shigella boydii Sb227 3779632 YP_407742.1 CDS yeaW NC_007613.1 1275798 1276922 R Code: PR; COG: COG4638; hypothetical protein complement(1275798..1276922) Shigella boydii Sb227 3779633 YP_407743.1 CDS yeaV NC_007613.1 1276954 1278399 R member of the betaine, carnitine, choline transporter (BCCT) family; unknown function; transporter complement(1276954..1278399) Shigella boydii Sb227 3779634 YP_407744.1 CDS yeaU NC_007613.1 1278814 1279899 R Code: CE; COG: COG0473; tartrate dehydrogenase complement(1278814..1279899) Shigella boydii Sb227 3779635 YP_407745.1 CDS yeaT NC_007613.1 1279981 1280925 D Code: K; COG: COG0583; LysR family transcriptional regulator 1279981..1280925 Shigella boydii Sb227 3779636 YP_407746.1 CDS SBO_1290 NC_007613.1 1281114 1281752 R IS4 orf complement(1281114..1281752) Shigella boydii Sb227 3779637 YP_407747.1 CDS SBO_1291 NC_007613.1 1281871 1282461 R IS4 orf complement(1281871..1282461) Shigella boydii Sb227 3779638 YP_407748.1 CDS yeaS NC_007613.1 1282554 1282928 D Code: E; COG: COG1280; hypothetical protein 1282554..1282928 Shigella boydii Sb227 3779639 YP_407749.1 CDS insB NC_007613.1 1283151 1283654 D Code: L; COG: COG1662; IS1 ORF2 1283151..1283654 Shigella boydii Sb227 3779640 YP_407750.1 CDS SBO_1294 NC_007613.1 1283670 1283906 D hypothetical protein 1283670..1283906 Shigella boydii Sb227 3779641 YP_407751.1 CDS yeaR NC_007613.1 1284215 1284439 D Code: P; COG: COG3615; hypothetical protein 1284215..1284439 Shigella boydii Sb227 3779642 YP_407752.1 CDS yoaG NC_007613.1 1284443 1284625 D hypothetical protein 1284443..1284625 Shigella boydii Sb227 3779643 YP_407753.1 CDS yeaQ NC_007613.1 1284773 1285021 D Code: S; COG: COG2261; hypothetical protein 1284773..1285021 Shigella boydii Sb227 3779644 YP_407754.1 CDS insB NC_007613.1 1285268 1285771 R Code: L; COG: COG1662; IS1 ORF2 complement(1285268..1285771) Shigella boydii Sb227 3779645 YP_407755.1 CDS SBO_1299 NC_007613.1 1285846 1286082 D IS1 encoded protein 1285846..1286082 Shigella boydii Sb227 3779646 YP_407756.1 CDS yoaF NC_007613.1 1286159 1286413 D Code: R; COG: COG3042; hypothetical protein 1286159..1286413 Shigella boydii Sb227 3779647 YP_407757.1 CDS yeaO NC_007613.1 1286435 1286803 R Code: S; COG: COG3189; hypothetical protein complement(1286435..1286803) Shigella boydii Sb227 3779648 YP_407758.1 CDS yeaN NC_007613.1 1286822 1288018 R Code: P; COG: COG2807; amino acid/amine transport protein complement(1286822..1288018) Shigella boydii Sb227 3779649 YP_407759.1 CDS yeaM NC_007613.1 1288115 1288936 D Code: K; COG: COG2207; ARAC-type regulatory protein 1288115..1288936 Shigella boydii Sb227 3779650 YP_407760.1 CDS yeaL NC_007613.1 1288893 1289339 R Code: S; COG: COG2707; hypothetical protein complement(1288893..1289339) Shigella boydii Sb227 3779651 YP_407761.1 CDS SBO_1305 NC_007613.1 1289460 1289612 D hypothetical protein 1289460..1289612 Shigella boydii Sb227 3779652 YP_407762.1 CDS yeaK NC_007613.1 1289613 1290116 R Code: S; COG: COG2606; hypothetical protein complement(1289613..1290116) Shigella boydii Sb227 3779653 YP_407763.1 CDS yeaI NC_007613.1 1291423 1292898 R Code: T; COG: COG2199; hypothetical protein complement(1291423..1292898) Shigella boydii Sb227 3779655 YP_407764.1 CDS yeaH NC_007613.1 1293045 1294328 R Code: S; COG: COG2718; hypothetical protein complement(1293045..1294328) Shigella boydii Sb227 3779656 YP_407765.1 CDS yeaG NC_007613.1 1294441 1296375 R Code: T; COG: COG2766; hypothetical protein complement(1294441..1296375) Shigella boydii Sb227 3779657 YP_407766.1 CDS yeaF NC_007613.1 1296811 1297557 D Code: M; COG: COG3713; hypothetical protein 1296811..1297557 Shigella boydii Sb227 3779658 YP_407767.1 CDS SBO_1312 NC_007613.1 1297647 1298501 D Code: R; COG: COG0656; aldehyde reductase 1297647..1298501 Shigella boydii Sb227 3779659 YP_407768.1 CDS yeaD NC_007613.1 1298552 1299457 R Code: G; COG: COG0676; hypothetical protein complement(1298552..1299457) Shigella boydii Sb227 3779660 YP_407769.1 CDS SBO_1314 NC_007613.1 1299557 1300147 D IS4 orf 1299557..1300147 Shigella boydii Sb227 3779661 YP_407770.1 CDS SBO_1315 NC_007613.1 1300266 1300862 D IS4 orf 1300266..1300862 Shigella boydii Sb227 3779662 YP_407771.1 CDS gapA NC_007613.1 1300959 1301954 R Code: G; COG: COG0057; glyceraldehyde-3-phosphate dehydrogenase complement(1300959..1301954) Shigella boydii Sb227 3779663 YP_407772.1 CDS yeaA NC_007613.1 1302296 1302709 D this stereospecific enzymes reduces the R isomer of methionine sulfoxide while MsrA reduces the S form; provides protection against oxidative stress; methionine sulfoxide reductase B 1302296..1302709 Shigella boydii Sb227 3779664 YP_407773.1 CDS SBO_1318 NC_007613.1 1302706 1303023 D Code: S; COG: COG3139; hypothetical protein 1302706..1303023 Shigella boydii Sb227 3779665 YP_407774.2 CDS ydjB NC_007613.1 1303184 1303825 R catalyzes the formation of nicotinate from nicotinamide in NAD biosynthesis and the formation of pyrazinoate from pyrazinamide; nicotinamidase/pyrazinamidase complement(1303184..1303825) Shigella boydii Sb227 3779666 YP_407775.1 CDS ansA NC_007613.1 1303836 1304852 R converts asparagine to aspartate and ammonia; asparaginase complement(1303836..1304852) Shigella boydii Sb227 3780303 YP_407776.1 CDS sppA NC_007613.1 1305019 1306875 R a signal peptide peptidase; SppA; catalyzes the degradation of cleaved signal peptides; essential to maintain secretion of mature proteins across the membrane; protease 4 complement(1305019..1306875) Shigella boydii Sb227 3780304 YP_407777.1 CDS ydjA NC_007613.1 1307036 1307587 D Code: C; COG: COG0778; hypothetical protein 1307036..1307587 Shigella boydii Sb227 3780305 YP_407778.1 CDS selD NC_007613.1 1307704 1308747 D H(2)Se added to acrylyl-tRNA; catalyzes the formation of selenophosphate from selenide and ATP; selenophosphate synthetase 1307704..1308747 Shigella boydii Sb227 3780306 YP_407779.1 CDS topB NC_007613.1 1308752 1310713 D decatenates replicating daughter chromosomes; DNA topoisomerase III 1308752..1310713 Shigella boydii Sb227 3780307 YP_407780.1 CDS SBO_1325 NC_007613.1 1310729 1311301 D hypothetical protein 1310729..1311301 Shigella boydii Sb227 3780308 YP_407781.1 CDS insB NC_007613.1 1311312 1311815 R Code: L; COG: COG1662; IS1 ORF2 complement(1311312..1311815) Shigella boydii Sb227 3780309 YP_407782.1 CDS SBO_1327 NC_007613.1 1311908 1312216 D IS1 encoded protein 1311908..1312216 Shigella boydii Sb227 3780310 YP_407783.1 CDS gdhA NC_007613.1 1312333 1313676 R converts 2-oxoglutarate to glutamate; in Escherichia coli this enzyme plays a role in glutamate synthesis when the cell is under energy restriction; uses NADPH; forms a homohexamer; glutamate dehydrogenase complement(1312333..1313676) Shigella boydii Sb227 3780311 YP_407784.1 CDS SBO_1329 NC_007613.1 1313912 1314184 D hypothetical protein 1313912..1314184 Shigella boydii Sb227 3780312 YP_407785.1 CDS SBO_1330 NC_007613.1 1314150 1314557 R Code: LR; COG: COG0494; pyrimidine (deoxy)nucleoside triphosphate pyrophosphohydrolase complement(1314150..1314557) Shigella boydii Sb227 3780313 YP_407786.1 CDS SBO_1331 NC_007613.1 1314638 1315255 D Code: I; COG: COG0558; cytochrome oxidase 1314638..1315255 Shigella boydii Sb227 3780314 YP_407787.1 CDS SBO_1332 NC_007613.1 1315264 1316586 R Code: P; COG: COG2897; thiosulfate sulfur transferase complement(1315264..1316586) Shigella boydii Sb227 3780315 YP_407788.1 CDS SBO_1333 NC_007613.1 1316638 1317291 R Code: R; COG: COG4136; ABC transporter ATP-binding protein complement(1316638..1317291) Shigella boydii Sb227 3780316 YP_407789.1 CDS SBO_1335 NC_007613.1 1318800 1319966 R Code: R; COG: COG4134; ABC transporter substrate-binding protein complement(1318800..1319966) Shigella boydii Sb227 3780318 YP_407790.1 CDS ynjA NC_007613.1 1319976 1320524 R Code: S; COG: COG2128; hypothetical protein complement(1319976..1320524) Shigella boydii Sb227 3780319 YP_407791.1 CDS ydjZ NC_007613.1 1320524 1321231 R Code: S; COG: COG0398; hypothetical protein complement(1320524..1321231) Shigella boydii Sb227 3780320 YP_407792.1 CDS ydjY NC_007613.1 1321405 1321986 R hypothetical protein complement(1321405..1321986) Shigella boydii Sb227 3780321 YP_407793.1 CDS insB NC_007613.1 1322089 1322592 R Code: L; COG: COG1662; IS1 ORF2 complement(1322089..1322592) Shigella boydii Sb227 3780322 YP_407794.1 CDS ydjX NC_007613.1 1322837 1323463 R Code: S; COG: COG0398; hypothetical protein complement(1322837..1323463) Shigella boydii Sb227 3780323 YP_407795.1 CDS xthA NC_007613.1 1323582 1324388 R removes the damaged DNA at cytosines and guanines by cleaving on the 3' side of the AP site by a beta-elimination reaction; exonuclease III complement(1323582..1324388) Shigella boydii Sb227 3780324 YP_407796.1 CDS cstC NC_007613.1 1324834 1326054 D catalyzes the transamination of 2-N-succinylornithine and alpha-ketoglutarate into 2-N-succinylglutamate semialdehyde and glutamate; also functions as the catabolic acetylornithine aminotransferase catalyzing the formation of 2-N-acetylglutamate semialdehyde and glutamate from 2-N-acetylornithine and alpha-ketoglutarate; bifunctional succinylornithine transaminase/acetylornithine transaminase 1324834..1326054 Shigella boydii Sb227 3780325 YP_407797.1 CDS SBO_1343 NC_007613.1 1326051 1327085 D Code: E; COG: COG3138; arginine succinyltransferase 1326051..1327085 Shigella boydii Sb227 3780326 YP_407798.1 CDS astD NC_007613.1 1327082 1328560 D a high throughput screen identified this enzyme as an aldehyde dehydrogenase with broad substrate specificity; converts succinylglutamate semialdehyde and NAD to succinylglutamate and NADH; succinylglutamic semialdehyde dehydrogenase 1327082..1328560 Shigella boydii Sb227 3780327 YP_407799.1 CDS SBO_1345 NC_007613.1 1328557 1329900 D catalyzes the hydrolysis of 2-N-succinylarginine into 2-N-succinylornithine, ammonia and carbon dioxide in arginine degradation; succinylarginine dihydrolase 1328557..1329900 Shigella boydii Sb227 3780328 YP_407800.1 CDS ydjS NC_007613.1 1329893 1330861 D catalyzes the formation of succinate and glutamate from N(2)-succinylglutamate in arginine catabolism; succinylglutamate desuccinylase 1329893..1330861 Shigella boydii Sb227 3780329 YP_407801.1 CDS spy NC_007613.1 1331191 1331661 D periplasmic protein related to spheroblast formation; periplasmic protein induced by stress response via Cpx and BaeSR system; similar to CpxP; hypothetical protein 1331191..1331661 Shigella boydii Sb227 3780330 YP_407802.1 CDS SBO_1348 NC_007613.1 1331801 1332439 D Code: S; COG: COG3758; hypothetical protein 1331801..1332439 Shigella boydii Sb227 3780331 YP_407803.1 CDS SBO_1349 NC_007613.1 1332399 1333286 R 3' incision activity; acts with UvrC; nucleotide excision repair endonuclease complement(1332399..1333286) Shigella boydii Sb227 3780332 YP_407804.1 CDS nadE NC_007613.1 1333516 1334343 R prefers NH3 over glutamine; catalyzes the formation of nicotinamide adenine dinucleotide (NAD) from nicotinic acid adenine dinucleotide (NAAD) using either ammonia or glutamine as the amide donor and ATP; ammonia-utilizing enzymes include the ones from Bacillus and Escherichia coli while glutamine-utilizing enzymes include the Mycobacterial one; forms homodimers; NAD synthetase complement(1333516..1334343) Shigella boydii Sb227 3780333 YP_407805.1 CDS osmE NC_007613.1 1334545 1334883 D osmotically-inducible lipoprotein E; activator of ntr-like gene protein; DNA-binding transcriptional activator OsmE 1334545..1334883 Shigella boydii Sb227 3780334 YP_407806.1 CDS celA NC_007613.1 1335181 1335501 D enzyme for for cellobiose, arbutin, and salicin; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; involved in N,N'-diacetylchitobiose transport; protein IIA transfers a phosphoryl group to IIB which then transfers the phosphoryl group to the sugar; IIC forms the translocation channel for the sugar uptake; PTS system N,N'-diacetylchitobiose-specific transporter subunit IIB 1335181..1335501 Shigella boydii Sb227 3780335 YP_407807.1 CDS insB NC_007613.1 1335525 1336028 R Code: L; COG: COG1662; IS1 ORF2 complement(1335525..1336028) Shigella boydii Sb227 3780336 YP_407808.1 CDS SBO_1354 NC_007613.1 1336121 1336294 D IS1 encoded protein 1336121..1336294 Shigella boydii Sb227 3780337 YP_407809.1 CDS SBO_1356 NC_007613.1 1336613 1336888 D Code: L; COG: COG2963; IS629 ORF1 1336613..1336888 Shigella boydii Sb227 3780339 YP_407810.1 CDS SBO_1357 NC_007613.1 1336888 1337775 D Code: L; COG: COG2801; IS629 ORF2 1336888..1337775 Shigella boydii Sb227 3780340 YP_407811.1 CDS SBO_1359 NC_007613.1 1338659 1338916 R IS1 encoded protein complement(1338659..1338916) Shigella boydii Sb227 3780342 YP_407812.1 CDS insB NC_007613.1 1338992 1339495 D Code: L; COG: COG1662; IS1 ORF2 1338992..1339495 Shigella boydii Sb227 3780343 YP_407813.1 CDS SBO_1361 NC_007613.1 1339626 1341017 R Code: R; COG: COG1823; kinase fragment complement(1339626..1341017) Shigella boydii Sb227 3780344 YP_407814.2 CDS SBO_1362 NC_007613.1 1341150 1341740 R Code: R; COG: COG1988; hypothetical protein complement(1341150..1341740) Shigella boydii Sb227 3780345 YP_407815.1 CDS yniC NC_007613.1 1341904 1342572 R YniC; catalyzes the dephosphorylation of 2-deoxyglucose 6-phosphate, mannose 6-phosphate and p-nitrophenyl phosphate; 2-deoxyglucose-6-phosphatase complement(1341904..1342572) Shigella boydii Sb227 3780346 YP_407816.1 CDS SBO_1364 NC_007613.1 1342719 1343255 D hypothetical protein 1342719..1343255 Shigella boydii Sb227 3780347 YP_407817.1 CDS SBO_1365 NC_007613.1 1343296 1344156 R Code: G; COG: COG3001; hypothetical protein complement(1343296..1344156) Shigella boydii Sb227 3780348 YP_407818.1 CDS SBO_1366 NC_007613.1 1344262 1344552 R hypothetical protein complement(1344262..1344552) Shigella boydii Sb227 3780349 YP_407819.1 CDS pfkB NC_007613.1 1344653 1345582 R suppressor of pfkA; Code: G; COG: COG1105; 6-phosphofructokinase complement(1344653..1345582) Shigella boydii Sb227 3780350 YP_407820.1 CDS SBO_1368 NC_007613.1 1345869 1346627 D Code: M; COG: COG3137; hypothetical protein 1345869..1346627 Shigella boydii Sb227 3780351 YP_407821.1 CDS SBO_1369 NC_007613.1 1346680 1346898 R hypothetical protein complement(1346680..1346898) Shigella boydii Sb227 3780352 YP_407822.1 CDS insB NC_007613.1 1346974 1347477 R Code: L; COG: COG1662; IS1 ORF2 complement(1346974..1347477) Shigella boydii Sb227 3780353 YP_407823.1 CDS SBO_1371 NC_007613.1 1347552 1347731 D IS1 encoded protein 1347552..1347731 Shigella boydii Sb227 3780354 YP_407824.1 CDS SBO_1372 NC_007613.1 1349162 1349344 R IS1 encoded protein complement(1349162..1349344) Shigella boydii Sb227 3780355 YP_407825.1 CDS insB NC_007613.1 1349437 1349940 D Code: L; COG: COG1662; IS1 ORF2 1349437..1349940 Shigella boydii Sb227 3780356 YP_407826.1 CDS thrS NC_007613.1 1350933 1352861 D catalyzes the formation of threonyl-tRNA(Thr) from threonine and tRNA(Thr); catalyzes a two-step reaction, first charging a threonine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; threonyl-tRNA synthetase 1350933..1352861 Shigella boydii Sb227 3780358 YP_407827.1 CDS infC NC_007613.1 1352973 1353407 D IF-3 has several functions that are required and promote translation initiation including; preventing association of 70S by binding to 30S; monitoring codon-anticodon interactions by promoting disassociation of fMet-tRNA(fMet) from initiation complexes formed on leaderless mRNAs or incorrectly bound noninitiatior tRNAs and complexes with noncanonical start sites; stimulates codon-anticodon interactions at P-site; involved in moving mRNA to the P-site; and in recycling subunits; translation initiation factor IF-3 1352973..1353407 Shigella boydii Sb227 3780359 YP_407828.1 CDS rpmI NC_007613.1 1353504 1353701 D Code: J; COG: COG0291; 50S ribosomal protein L35 1353504..1353701 Shigella boydii Sb227 3780360 YP_407829.1 CDS rplT NC_007613.1 1353754 1354086 D regulator; binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit; 50S ribosomal protein L20 1353754..1354086 Shigella boydii Sb227 3780361 YP_407830.1 CDS pheS NC_007613.1 1354561 1355544 D catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a heterotetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 1 subfamily; phenylalanyl-tRNA synthetase subunit alpha 1354561..1355544 Shigella boydii Sb227 3780362 YP_407831.1 CDS pheT NC_007613.1 1355559 1357946 D catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a tetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 2 subfamily; phenylalanyl-tRNA synthetase subunit beta 1355559..1357946 Shigella boydii Sb227 3780363 YP_407832.1 CDS ihfA NC_007613.1 1357951 1358250 D site-specific recombination; IHF; This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control; integration host factor subunit alpha 1357951..1358250 Shigella boydii Sb227 3780364 YP_407833.1 CDS SBO_1382 NC_007613.1 1359033 1359398 D IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein 1359033..1359398 Shigella boydii Sb227 3780365 YP_407834.2 CDS SBO_1383 NC_007613.1 1359356 1360261 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 1359356..1360261 Shigella boydii Sb227 3780366 YP_407835.1 CDS SBO_1384 NC_007613.1 1360604 1363723 R hypothetical protein complement(1360604..1363723) Shigella boydii Sb227 3780367 YP_407836.1 CDS SBO_1385 NC_007613.1 1363972 1364892 R Code: R; COG: COG3500; bacteriophage late gene regulator complement(1363972..1364892) Shigella boydii Sb227 3780368 YP_407837.1 CDS SBO_1386 NC_007613.1 1365239 1366423 D Code: R; COG: COG3497; tail sheath protein 1365239..1366423 Shigella boydii Sb227 3780369 YP_407838.1 CDS SBO_1387 NC_007613.1 1366423 1366743 D tail tube protein 1366423..1366743 Shigella boydii Sb227 3780370 YP_407839.1 CDS SBO_1388 NC_007613.1 1367121 1367363 D tail protein 1367121..1367363 Shigella boydii Sb227 3780371 YP_407840.1 CDS SBO_1389 NC_007613.1 1367514 1370321 D Code: S; COG: COG5283; tail protein 1367514..1370321 Shigella boydii Sb227 3780372 YP_407841.1 CDS SBO_1390 NC_007613.1 1370334 1370822 D Code: R; COG: COG3499; tail protein 1370334..1370822 Shigella boydii Sb227 3780373 YP_407842.1 CDS SBO_1391 NC_007613.1 1370851 1371450 R Code: L; COG: COG1961; DNA-invertase complement(1370851..1371450) Shigella boydii Sb227 3780374 YP_407843.1 CDS SBO_1392 NC_007613.1 1372229 1372762 D tail fiber assembly protein 1372229..1372762 Shigella boydii Sb227 3780375 YP_407844.1 CDS SBO_1393 NC_007613.1 1372791 1373354 R tail fiber assembly protein complement(1372791..1373354) Shigella boydii Sb227 3780376 YP_407845.1 CDS SBO_1394 NC_007613.1 1373323 1375473 R Code: R; COG: COG5301; bacteriophage tail protein complement(1373323..1375473) Shigella boydii Sb227 3780377 YP_407846.1 CDS SBO_1395 NC_007613.1 1375476 1376006 R Code: R; COG: COG4385; phage tail protein complement(1375476..1376006) Shigella boydii Sb227 3780378 YP_407847.1 CDS SBO_1396 NC_007613.1 1375999 1376895 R Code: R; COG: COG3948; phage baseplate assembly protein complement(1375999..1376895) Shigella boydii Sb227 3780379 YP_407848.1 CDS SBO_1397 NC_007613.1 1376899 1377228 R Code: R; COG: COG3628; phage baseplate assembly protein complement(1376899..1377228) Shigella boydii Sb227 3780380 YP_407849.1 CDS SBO_1398 NC_007613.1 1377246 1377812 R Code: R; COG: COG4540; phage baseplate assembly protein complement(1377246..1377812) Shigella boydii Sb227 3780381 YP_407850.1 CDS SBO_1399 NC_007613.1 1377824 1378459 R phage tail completion protein complement(1377824..1378459) Shigella boydii Sb227 3780382 YP_407851.1 CDS SBO_1400 NC_007613.1 1378452 1378919 R phage tail protein complement(1378452..1378919) Shigella boydii Sb227 3780383 YP_407852.1 CDS SBO_1401 NC_007613.1 1379057 1379464 R hypothetical protein complement(1379057..1379464) Shigella boydii Sb227 3780384 YP_407853.1 CDS SBO_1402 NC_007613.1 1379461 1379853 R endolysin complement(1379461..1379853) Shigella boydii Sb227 3780385 YP_407854.1 CDS SBO_1403 NC_007613.1 1380176 1380409 R Code: R; COG: COG5004; phage tail protein complement(1380176..1380409) Shigella boydii Sb227 3780386 YP_407855.1 CDS SBO_1404 NC_007613.1 1380376 1380870 R capsid completion protein complement(1380376..1380870) Shigella boydii Sb227 3780387 YP_407856.1 CDS SBO_1405 NC_007613.1 1381036 1381782 R phage terminase complement(1381036..1381782) Shigella boydii Sb227 3780388 YP_407857.1 CDS SBO_1406 NC_007613.1 1381828 1382700 R major capsid protein complement(1381828..1382700) Shigella boydii Sb227 3780389 YP_407858.1 CDS SBO_1407 NC_007613.1 1382903 1383739 R capsid scaffolding protein complement(1382903..1383739) Shigella boydii Sb227 3780390 YP_407859.1 CDS SBO_1408 NC_007613.1 1383894 1385645 D Code: S; COG: COG5484; terminase subunit 1383894..1385645 Shigella boydii Sb227 3780391 YP_407860.1 CDS SBO_1409 NC_007613.1 1385645 1386691 D Code: R; COG: COG5518; capsid portal protein 1385645..1386691 Shigella boydii Sb227 3780392 YP_407861.1 CDS SBO_1410 NC_007613.1 1387182 1387772 R hypothetical protein complement(1387182..1387772) Shigella boydii Sb227 3780393 YP_407862.1 CDS SBO_1411 NC_007613.1 1388152 1388772 R stability/partitioning protein complement(1388152..1388772) Shigella boydii Sb227 3780394 YP_407863.1 CDS SBO_1412 NC_007613.1 1388766 1389605 R Code: L; COG: COG2801; IS911 ORF2 complement(1388766..1389605) Shigella boydii Sb227 3780395 YP_407864.1 CDS SBO_1413 NC_007613.1 1389958 1390260 D IS2 ORF2 1389958..1390260 Shigella boydii Sb227 3780396 YP_407865.1 CDS SBO_1414 NC_007613.1 1390231 1390467 R hypothetical protein complement(1390231..1390467) Shigella boydii Sb227 3780397 YP_407866.1 CDS SBO_1415 NC_007613.1 1390722 1391609 R Code: L; COG: COG2801; IS629 ORF2 complement(1390722..1391609) Shigella boydii Sb227 3780398 YP_407867.1 CDS SBO_1416 NC_007613.1 1391609 1391884 R Code: L; COG: COG2963; IS629 ORF1 complement(1391609..1391884) Shigella boydii Sb227 3780399 YP_407868.1 CDS btuC NC_007613.1 1393139 1394119 D with BtuD and BtuF transports vitamin B12 into the cell; vtamin B12-transporter permease 1393139..1394119 Shigella boydii Sb227 3780400 YP_407869.1 CDS btuE NC_007613.1 1394182 1394733 D similar to glutathione peroxidase; member of the btuCED operon which is required for vitamin B12 transport across the inner membrane; glutathione peroxidase 1394182..1394733 Shigella boydii Sb227 3780401 YP_407870.1 CDS btuD NC_007613.1 1394733 1395482 D ATP-binding protein that acts with the transmembrane protein BtuC and the solute binding protein BtuF to transport vitamin B12 into the cell; vitamin B12-transporter ATPase 1394733..1395482 Shigella boydii Sb227 3780402 YP_407871.1 CDS nlpC NC_007613.1 1395560 1396024 D Code: M; COG: COG0791; lipoprotein 1395560..1396024 Shigella boydii Sb227 3780403 YP_407872.1 CDS SBO_1421 NC_007613.1 1396270 1396983 D Code: T; COG: COG2200; hypothetical protein 1396270..1396983 Shigella boydii Sb227 3780404 YP_407873.1 CDS SBO_1422 NC_007613.1 1397046 1398482 D Code: S; COG: COG0397; hypothetical protein 1397046..1398482 Shigella boydii Sb227 3780405 YP_407874.1 CDS ydiE NC_007613.1 1398486 1398677 R Code: P; COG: COG4256; hypothetical protein complement(1398486..1398677) Shigella boydii Sb227 3780406 YP_407875.1 CDS aroH NC_007613.1 1398809 1399855 R DAHP synthetase, tryptophan repressible; tryptophan sensitive; catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7 phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate; phospho-2-dehydro-3-deoxyheptonate aldolase complement(1398809..1399855) Shigella boydii Sb227 3780407 YP_407876.1 CDS ydiA NC_007613.1 1400011 1400844 R Code: S; COG: COG1806; hypothetical protein complement(1400011..1400844) Shigella boydii Sb227 3780408 YP_407877.2 CDS SBO_1426 NC_007613.1 1401458 1402363 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 1401458..1402363 Shigella boydii Sb227 3780409 YP_407878.1 CDS ppsA NC_007613.1 1402513 1404891 D catalyzes the formation of phosphoenolpyruvate from pyruvate; phosphoenolpyruvate synthase 1402513..1404891 Shigella boydii Sb227 3780410 YP_407879.1 CDS SBO_1428 NC_007613.1 1404948 1405280 R IS1 encoded protein complement(1404948..1405280) Shigella boydii Sb227 3780411 YP_407880.1 CDS insB NC_007613.1 1405373 1405876 D Code: L; COG: COG1662; IS1 ORF2 1405373..1405876 Shigella boydii Sb227 3780412 YP_407881.1 CDS ydiT NC_007613.1 1407428 1407721 R Code: C; COG: COG2440; hypothetical protein complement(1407428..1407721) Shigella boydii Sb227 3780414 YP_407882.1 CDS ydiS NC_007613.1 1407718 1409007 R flavoprotein; probably electron transport; Code: C; COG: COG0644; hypothetical protein complement(1407718..1409007) Shigella boydii Sb227 3780415 YP_407883.1 CDS ydiR NC_007613.1 1409063 1410001 R May play a role in a redox process; electron transfer flavoprotein subunit YdiR complement(1409063..1410001) Shigella boydii Sb227 3780416 YP_407884.1 CDS SBO_1435 NC_007613.1 1411106 1412017 D Code: K; COG: COG2207; ARAC-type regulatory protein 1411106..1412017 Shigella boydii Sb227 3780418 YP_407885.2 CDS SBO_1436 NC_007613.1 1412060 1413211 R may play a role in electron transport between the anaerobic fatty acid oxidation pathway and the respiratory chain; acyl-CoA dehydrogenase complement(1412060..1413211) Shigella boydii Sb227 3780419 YP_407886.1 CDS aroD NC_007613.1 1414966 1415724 R catalyzes the dehydration of 3-dehydroquinate to form 3-dehydroshikimate in aromatic amino acid biosynthesis; 3-dehydroquinate dehydratase complement(1414966..1415724) Shigella boydii Sb227 3780421 YP_407887.1 CDS SBO_1440 NC_007613.1 1416634 1417353 R Code: GEPR; COG: COG0477; amino acid/amine transport protein complement(1416634..1417353) Shigella boydii Sb227 3780423 YP_407888.1 CDS SBO_1441 NC_007613.1 1417301 1417624 R hypothetical protein complement(1417301..1417624) Shigella boydii Sb227 3780424 YP_407889.1 CDS SBO_1442 NC_007613.1 1418109 1419221 R YdiK; inner membrane protein; ydiK promoter presents a PurR sequence, suggesting that its expression is purine-regulated; unknown function; inner membrane protein complement(1418109..1419221) Shigella boydii Sb227 3780425 YP_407890.1 CDS ydiJ NC_007613.1 1419610 1422666 D Code: C; COG: COG0277; oxidase 1419610..1422666 Shigella boydii Sb227 3780426 YP_407891.1 CDS SBO_1444 NC_007613.1 1422663 1423073 D Code: Q; COG: COG2050; hypothetical protein 1422663..1423073 Shigella boydii Sb227 3780427 YP_407892.1 CDS SBO_1445 NC_007613.1 1423092 1423361 D hypothetical protein 1423092..1423361 Shigella boydii Sb227 3780428 YP_407893.1 CDS sufA NC_007613.1 1423909 1424277 D functions as a scaffold on which iron-sulfur clusters ([2Fe-2S]; [4Fe-4S]) are assembled; forms a homodimer; similar to IscA protein; iron-sulfur cluster assembly scaffold protein 1423909..1424277 Shigella boydii Sb227 3780429 YP_407894.1 CDS ynhE NC_007613.1 1424247 1425773 D with SufCD activates cysteine desulfurase SufS; cysteine desulfurase activator complex subunit SufB 1424247..1425773 Shigella boydii Sb227 3780430 YP_407895.1 CDS sufC NC_007613.1 1425783 1426529 D part of SUF system involved in inserting iron-sulfur clusters into proteins; in Escherichia coli this protein forms a complex with SufBD; the SufBCD complex stimulates the cysteine desulfurase SufS in conjunction with SufE; cysteine desulfurase 1425783..1426529 Shigella boydii Sb227 3780431 YP_407896.1 CDS ynhC NC_007613.1 1426504 1427775 D with SufBC activates cysteine desulfurase SufS; cysteine desulfurase activator complex subunit SufD 1426504..1427775 Shigella boydii Sb227 3780432 YP_407897.1 CDS SBO_1450 NC_007613.1 1427772 1428992 D catalyzes the formation of L-alanine and selenide or sulfanylcysteine from selenocysteine or cysteine; bifunctional cysteine desulfurase/selenocysteine lyase 1427772..1428992 Shigella boydii Sb227 3780433 YP_407898.1 CDS ynhA NC_007613.1 1429005 1429421 D Acts with SufS to catalyze the formation of L-alanine from L-cysteine; cysteine desufuration protein SufE 1429005..1429421 Shigella boydii Sb227 3780434 YP_407899.1 CDS ynhG NC_007613.1 1429570 1430574 D Code: S; COG: COG1376; hypothetical protein 1429570..1430574 Shigella boydii Sb227 3780435 YP_407900.1 CDS lpp NC_007613.1 1430637 1430873 R Code: M; COG: COG4238; murein lipoprotein complement(1430637..1430873) Shigella boydii Sb227 3780436 YP_407901.1 CDS pykF NC_007613.1 1431185 1432597 R formerly F; fructose-stimulated; catalyzes the formation of phosphoenolpyruvate from pyruvate; pyruvate kinase complement(1431185..1432597) Shigella boydii Sb227 3780437 YP_407902.1 CDS SBO_1455 NC_007613.1 1433154 1433363 D hypothetical protein 1433154..1433363 Shigella boydii Sb227 3780438 YP_407903.1 CDS SBO_1456 NC_007613.1 1433551 1433733 R IS1 encoded protein complement(1433551..1433733) Shigella boydii Sb227 3780439 YP_407904.1 CDS insB NC_007613.1 1433826 1434329 D Code: L; COG: COG1662; IS1 ORF2 1433826..1434329 Shigella boydii Sb227 3780440 YP_407905.1 CDS SBO_1458 NC_007613.1 1434596 1435273 D Code: C; COG: COG0437; hypothetical protein 1434596..1435273 Shigella boydii Sb227 3780441 YP_407906.1 CDS SBO_1459 NC_007613.1 1435243 1437345 D Code: C; COG: COG2414; oxidoreductase 1435243..1437345 Shigella boydii Sb227 3780442 YP_407907.1 CDS SBO_1460 NC_007613.1 1437349 1437996 D hypothetical protein 1437349..1437996 Shigella boydii Sb227 3780443 YP_407908.1 CDS SBO_1461 NC_007613.1 1438009 1438728 D Code: C; COG: COG0437; oxidoreductase, Fe-S subunit 1438009..1438728 Shigella boydii Sb227 3780444 YP_407909.1 CDS ydhU NC_007613.1 1438725 1439510 D Code: C; COG: COG4117; hypothetical protein 1438725..1439510 Shigella boydii Sb227 3780445 YP_407910.1 CDS SBO_1463 NC_007613.1 1439514 1440326 D hypothetical protein 1439514..1440326 Shigella boydii Sb227 3780446 YP_407911.1 CDS SBO_1464 NC_007613.1 1440338 1441942 R Code: S; COG: COG4529; hypothetical protein complement(1440338..1441942) Shigella boydii Sb227 3780447 YP_407912.1 CDS SBO_1465 NC_007613.1 1442068 1442373 R hypothetical protein complement(1442068..1442373) Shigella boydii Sb227 3780448 YP_407913.1 CDS SBO_1467 NC_007613.1 1442865 1444121 D Code: MU; COG: COG3468; hypothetical protein 1442865..1444121 Shigella boydii Sb227 3780450 YP_407914.1 CDS ydhE NC_007613.1 1444162 1445535 R NorM; MdtK; functions as a Na(+)/drug antiporter; inactivation in Vibrio cholerae results in susceptibility to fluoroquinolones; multidrug efflux protein complement(1444162..1445535) Shigella boydii Sb227 3780451 YP_407915.1 CDS ribE NC_007613.1 1445750 1446391 D catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine; riboflavin synthase subunit alpha 1445750..1446391 Shigella boydii Sb227 3780452 YP_407916.1 CDS cfa NC_007613.1 1446431 1447579 R catalyzes the transfer of a methylene group from S-adenosyl-L-methionine to the cis double bond of an unsaturated fatty acid chain resulting in the replacement of the double bond with a methylene bridge; cyclopropane-fatty-acyl-phospholipid synthase complement(1446431..1447579) Shigella boydii Sb227 3780453 YP_407917.1 CDS ydhC NC_007613.1 1447870 1449081 R uncharacterized member of the major facilitator superfamily (MFS); inner membrane transport protein YdhC complement(1447870..1449081) Shigella boydii Sb227 3780454 YP_407918.1 CDS ydhB NC_007613.1 1449194 1450126 D Code: K; COG: COG0583; DNA-binding transcriptional regulator 1449194..1450126 Shigella boydii Sb227 3780455 YP_407919.1 CDS purR NC_007613.1 1450123 1451148 R transcriptional repressor for pur regulon, glyA, glnB, prsA, speA; binds to the purF operator and coregulates other genes for de novo purine nucleotide synthesis; is involved in regulation of purB, purC, purEK, purHD, purL, purMN and guaBA expression; binds hypoxanthine and guanine as inducers; DNA-binding transcriptional repressor PurR complement(1450123..1451148) Shigella boydii Sb227 3780456 YP_407920.1 CDS SBO_1474 NC_007613.1 1451702 1452877 D Code: G; COG: COG2814; transporter 1451702..1452877 Shigella boydii Sb227 3780457 YP_407921.1 CDS sodB NC_007613.1 1453023 1453604 R SodB; iron binding; present under aerobic and anaerobic conditions; destroys free radicals; superoxide dismutase complement(1453023..1453604) Shigella boydii Sb227 3780458 YP_407922.1 CDS ydhO NC_007613.1 1453732 1454547 R Code: M; COG: COG0791; lipoprotein complement(1453732..1454547) Shigella boydii Sb227 3780459 YP_407923.1 CDS insB NC_007613.1 1454693 1455196 R Code: L; COG: COG1662; IS1 ORF2 complement(1454693..1455196) Shigella boydii Sb227 3780460 YP_407924.1 CDS SBO_1478 NC_007613.1 1455289 1455459 D IS1-encoded protein 1455289..1455459 Shigella boydii Sb227 3780461 YP_407925.1 CDS ydhD NC_007613.1 1455557 1455904 D Code: O; COG: COG0278; hypothetical protein 1455557..1455904 Shigella boydii Sb227 3780462 YP_407926.1 CDS SBO_1480 NC_007613.1 1456424 1456699 D Code: L; COG: COG2963; IS629 ORF1 1456424..1456699 Shigella boydii Sb227 3780463 YP_407927.1 CDS SBO_1481 NC_007613.1 1456699 1457586 D Code: L; COG: COG2801; IS629 ORF2 1456699..1457586 Shigella boydii Sb227 3780464 YP_407928.1 CDS lhr NC_007613.1 1457589 1461725 R Code: R; COG: COG1201; ATP-dependent helicase superfamily protein complement(1457589..1461725) Shigella boydii Sb227 3780465 YP_407929.1 CDS rnt NC_007613.1 1461818 1462465 R degrades tRNA; Responsible for the end-turnover of tRNA: specifically removes the terminal AMP residue from uncharged tRNA (tRNA-C-C-A); ribonuclease T complement(1461818..1462465) Shigella boydii Sb227 3780466 YP_407930.1 CDS gloA NC_007613.1 1462568 1462975 R Ni-dependent; catalyzes the formation of S-lactoylglutathione from methylglyoxal and glutathione; glyoxalase I complement(1462568..1462975) Shigella boydii Sb227 3780467 YP_407931.1 CDS SBO_1487 NC_007613.1 1464190 1464789 R Code: K; COG: COG1309; hypothetical protein complement(1464190..1464789) Shigella boydii Sb227 3780470 YP_407932.1 CDS SBO_1486 NC_007613.1 1464754 1465131 D Code: R; COG: COG3313; hypothetical protein 1464754..1465131 Shigella boydii Sb227 3780469 YP_407933.1 CDS SBO_1488 NC_007613.1 1465180 1466076 D Code: R; COG: COG4989; hypothetical protein 1465180..1466076 Shigella boydii Sb227 3780471 YP_407934.1 CDS sodC NC_007613.1 1466157 1466678 D SodC; copper and zinc binding; converts superoxide radicals to hydrogen peroxide and water; superoxide dismutase 1466157..1466678 Shigella boydii Sb227 3780472 YP_407935.1 CDS SBO_1490 NC_007613.1 1466679 1468286 R Code: S; COG: COG1289; hypothetical protein complement(1466679..1468286) Shigella boydii Sb227 3780473 YP_407936.1 CDS SBO_1491 NC_007613.1 1468691 1469590 R Code: V; COG: COG1566; hypothetical protein complement(1468691..1469590) Shigella boydii Sb227 3780474 YP_407937.2 CDS slyA NC_007613.1 1469988 1470422 D Transcription regulator that can both activate or repress expression; transcriptional regulator SlyA 1469988..1470422 Shigella boydii Sb227 3780475 YP_407938.1 CDS slyB NC_007613.1 1470469 1470936 R Code: M; COG: COG3133; outer membrane protein complement(1470469..1470936) Shigella boydii Sb227 3780476 YP_407939.1 CDS anmK NC_007613.1 1471210 1472319 D catalyzes hydrolysis of 1,6-anhydro bond of anyhydro-N-acetylmuramic acid (anhMurNAc) and phosphorylates anhMurNAc to produce N-acetyl-muramate-6-phosphate; involved in murein recycling; anhydro-N-acetylmuramic acid kinase 1471210..1472319 Shigella boydii Sb227 3780477 YP_407940.1 CDS ydhA NC_007613.1 1472498 1472746 D Code: R; COG: COG3895; hypothetical protein 1472498..1472746 Shigella boydii Sb227 3780478 YP_407941.1 CDS pdxH NC_007613.1 1472805 1473461 D catalyzes the formation of pyridoxal 5'-phosphate from pyridoxamine 5'-phosphate; pyridoxamine 5'-phosphate oxidase 1472805..1473461 Shigella boydii Sb227 3780479 YP_407942.1 CDS tyrS NC_007613.1 1473590 1474864 D catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr); tyrosyl-tRNA synthetase 1473590..1474864 Shigella boydii Sb227 3780480 YP_407943.1 CDS pdxY NC_007613.1 1474923 1475786 D catalyzes the formation of pyridoxal 5'-phosphate from pyridoxal; pyridoxamine kinase 1474923..1475786 Shigella boydii Sb227 3780481 YP_407944.1 CDS gst NC_007613.1 1475830 1476435 R Code: O; COG: COG0625; glutathionine S-transferase complement(1475830..1476435) Shigella boydii Sb227 3780482 YP_407945.1 CDS tppB NC_007613.1 1476541 1478043 R mutations in this gene confer resistance to the toxic peptide alafosfalin in Salmonella typhimurium; member of proton-dependent oligopeptide transport (POT) system family; in Escherichia coli this gene is regulated by OmpR although not via osmoregulation; tripeptide transporter permease complement(1476541..1478043) Shigella boydii Sb227 3780483 YP_407946.1 CDS nth NC_007613.1 1478655 1479290 R specific for apurinic and/or apyrimidinic sites; DNA-(apurinic or apyrimidinic site) lyase; has apurinic or apyrimidinic endonuclease activity and DNA N-glycosylase activity; removed damaged DNA at cytosines, thymines and guanines; endonuclease III complement(1478655..1479290) Shigella boydii Sb227 3780484 YP_407947.1 CDS ydgQ NC_007613.1 1479290 1479985 R in Excherichia coli RsxABCDEG reduces SoxR which turns off induction of SoxS transcription factor in the absence of oxidizing agents; similar to the rnfABCDGE operon in Rhodobacter capsulatus involved in transferring electrons to nitrogenase; electron transport complex protein RsxE complement(1479290..1479985) Shigella boydii Sb227 3780485 YP_407948.1 CDS SBO_1503 NC_007613.1 1479989 1480609 R part of membrane-bound complex hought to be involved in electron transport to nitrogen; electron transport complex protein RnfG complement(1479989..1480609) Shigella boydii Sb227 3780486 YP_407949.1 CDS rnfD NC_007613.1 1480613 1481671 R RnfD; RsxD; required for nitrogen fixation in Rhodobacter capsulatus; part of a membrane-bound complex thought to be involved in electron transport to nitrogenase; in Escherichia coli this gene is part of a cluster controlling SoxR-mediated induction of the SoxS transcription factor in the absence of oxidizing agents; electron transport complex protein RnfD complement(1480613..1481671) Shigella boydii Sb227 3780487 YP_407950.1 CDS SBO_1505 NC_007613.1 1481672 1483894 R part of membrane-bound complex thought to be involved in electron transport to nitrogen; electron transport complex protein RnfC complement(1481672..1483894) Shigella boydii Sb227 3780488 YP_407951.1 CDS SBO_1506 NC_007613.1 1483887 1484465 R part of membrane-bound complex thought to be involved in electron transport to nitrogen; electron transport complex protein RnfB complement(1483887..1484465) Shigella boydii Sb227 3780489 YP_407952.1 CDS SBO_1507 NC_007613.1 1484465 1485046 R Code: C; COG: COG4657; Na(+)-translocating NADH-quinone reductase subunit E complement(1484465..1485046) Shigella boydii Sb227 3780490 YP_407953.1 CDS SBO_1508 NC_007613.1 1485123 1485587 R hypothetical protein complement(1485123..1485587) Shigella boydii Sb227 3780491 YP_407954.1 CDS SBO_1509 NC_007613.1 1485649 1485864 R YdgT; in E. coli, when complexed with H-NS or StpA binds a 26 base-pair DNA sequence of oriC; seems to play a role in optimizing the activity of oriC; non-essential; Hha protein paralog; in an hha mutant background, cnu is overexpressed and can compensate hha-induced phenotypes; oriC-binding nucleoid-associated protein complement(1485649..1485864) Shigella boydii Sb227 3780492 YP_407955.2 CDS SBO_1510 NC_007613.1 1486475 1487515 D Code: R; COG: COG0673; oxidoreductase 1486475..1487515 Shigella boydii Sb227 3780493 YP_407956.1 CDS add NC_007613.1 1487550 1488551 R catalyzes the formation of inosine from adenosine; adenosine deaminase complement(1487550..1488551) Shigella boydii Sb227 3780494 YP_407957.1 CDS malY NC_007613.1 1488654 1489826 R enzyme that may degrade or block biosynthesis of endogenous mal inducer, probably aminotrasferase; Code: E; COG: COG1168; MalY protein complement(1488654..1489826) Shigella boydii Sb227 3780495 YP_407958.1 CDS malX NC_007613.1 1489836 1491428 R PTS system maltose and glucose-specific II ABC; phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS); catalyzes the phosphorylation of maltose and glucose concomitant with their translocation across the cell membrane; component IIB catalyzes the phosphorylation of the sugar molecule; IIC forms the translocation channel and contains the substrate specific binding site; PTS system maltose and glucose-specific transporter subunits IICB complement(1489836..1491428) Shigella boydii Sb227 3780496 YP_407959.1 CDS malI NC_007613.1 1491603 1492631 D regulates malXY which are involved in maltose-glucose transport; DNA-binding transcriptional repressor MalI 1491603..1492631 Shigella boydii Sb227 3780497 YP_407960.1 CDS SBO_1515 NC_007613.1 1492774 1493364 D IS4 orf 1492774..1493364 Shigella boydii Sb227 3780498 YP_407961.1 CDS SBO_1516 NC_007613.1 1493483 1494121 D IS4 orf 1493483..1494121 Shigella boydii Sb227 3780499 YP_407962.1 CDS hdhA NC_007613.1 1494183 1494950 D dehydroxylation of bile acids; Acts on the hydroxyl group at position 7 of the steroid frame; 7-alpha-hydroxysteroid dehydrogenase 1494183..1494950 Shigella boydii Sb227 3780500 YP_407963.1 CDS uidR NC_007613.1 1495179 1495769 D Code: K; COG: COG1309; repressor for uid operon 1495179..1495769 Shigella boydii Sb227 3780501 YP_407964.1 CDS uidB NC_007613.1 1497954 1499327 D Code: G; COG: COG2211; glucuronide transporter 1497954..1499327 Shigella boydii Sb227 3780503 YP_407965.2 CDS uidC NC_007613.1 1499366 1500631 D outer membrane porin protein 1499366..1500631 Shigella boydii Sb227 3780504 YP_407966.1 CDS ydgA NC_007613.1 1500857 1502365 R Code: S; COG: COG5339; hypothetical protein complement(1500857..1502365) Shigella boydii Sb227 3780505 YP_407967.1 CDS manA NC_007613.1 1502466 1503641 R Code: G; COG: COG1482; mannose-6-phosphate isomerase complement(1502466..1503641) Shigella boydii Sb227 3780506 YP_407968.1 CDS fumA NC_007613.1 1503840 1505486 D fumarate hydratase Class I; aerobic isozyme; Code: C; COG: COG1951; fumarase A 1503840..1505486 Shigella boydii Sb227 3780507 YP_407969.1 CDS fumC NC_007613.1 1505629 1507032 D fumarate hydratase Class II; isozyme; class II family (does not require metal); tetrameric enzyme; fumarase C; reversibly converts (S)-malate to fumarate and water; functions in the TCA cycle; fumarate hydratase 1505629..1507032 Shigella boydii Sb227 3780508 YP_407970.1 CDS tus NC_007613.1 1507029 1507958 R inhibition of replication at Ter sites; binds to DNA replication terminator sequences to prevent passage of replication forks; DNA replication terminus site-binding protein complement(1507029..1507958) Shigella boydii Sb227 3780509 YP_407971.1 CDS rstB NC_007613.1 1508034 1509335 R RstA regulator; Code: T; COG: COG0642; sensor protein RstB complement(1508034..1509335) Shigella boydii Sb227 3780510 YP_407972.1 CDS rstA NC_007613.1 1509339 1510067 R RstB sensor; response regulator in two-component regulatory system with RstB; DNA-binding transcriptional regulator RstA complement(1509339..1510067) Shigella boydii Sb227 3780511 YP_407973.1 CDS ydgC NC_007613.1 1510211 1510507 D Code: R; COG: COG3136; hypothetical protein 1510211..1510507 Shigella boydii Sb227 3780512 YP_407974.1 CDS ydgB NC_007613.1 1510504 1511226 R Code: IQR; COG: COG1028; short chain dehydrogenase complement(1510504..1511226) Shigella boydii Sb227 3780513 YP_407975.1 CDS SBO_1531 NC_007613.1 1511263 1512645 R Code: E; COG: COG0531; arginine/ornithine antiporter complement(1511263..1512645) Shigella boydii Sb227 3780514 YP_407976.1 CDS SBO_1532 NC_007613.1 1512831 1513775 R hypothetical protein complement(1512831..1513775) Shigella boydii Sb227 3780515 YP_407977.1 CDS pntA NC_007613.1 1514299 1515831 D forms a tetramer composed of 2 alpha subunits and 2 beta subunits in the inner membrane; involved in catalyzing transfer of hydride ion equivalents between NAD and NADP; stereospecific (AB-specific); functions as a proton pump by translocating protons from cytoplasm to periplasm; NAD(P) transhydrogenase subunit alpha 1514299..1515831 Shigella boydii Sb227 3780516 YP_407978.1 CDS pntB NC_007613.1 1515842 1517230 D catalyzes reversible transfer of hydride ion equivalent between NAD and NADP; membrane-bound proton pump that translocates protons from cytosolic to periplasmic side of the inner membrane; forms a tetramer composed of two alpha and 2 beta subunits; AB-stereospecific enzyme; pyridine nucleotide transhydrogenase 1515842..1517230 Shigella boydii Sb227 3780517 YP_407979.1 CDS tqsA NC_007613.1 1517255 1518289 R transport of quorum-sensing signal; mutations in this gene alters the transport of the quorum-sensing signal autoinducer 2 (AI-2) which affects expression of a large number of genes; transporter complement(1517255..1518289) Shigella boydii Sb227 3780518 YP_407980.1 CDS SBO_1536 NC_007613.1 1518701 1519066 D with MdtI is involved in resistance to deoxycholate , nalidixic acid, fosfomycin, and SDS; multidrug efflux system protein MdtJ 1518701..1519066 Shigella boydii Sb227 3780519 YP_407981.1 CDS SBO_1537 NC_007613.1 1519053 1519382 D with MdtJ is involved in resistance to deoxycholate, nalidixic acid, fosfomycin, and SDS; multidrug efflux system protein MdtI 1519053..1519382 Shigella boydii Sb227 3780520 YP_407982.1 CDS SBO_1538 NC_007613.1 1519421 1520242 R Code: E; COG: COG3591; hypothetical protein complement(1519421..1520242) Shigella boydii Sb227 3780521 YP_407983.2 CDS asr NC_007613.1 1520518 1520805 R required for growth and survival under moderately acid conditions; acid shock protein complement(1520518..1520805) Shigella boydii Sb227 3780522 YP_407984.1 CDS ynfL NC_007613.1 1522588 1523481 D Code: K; COG: COG0583; LysR family transcriptional regulator 1522588..1523481 Shigella boydii Sb227 3780524 YP_407985.1 CDS mlc NC_007613.1 1523616 1524836 D Code: KG; COG: COG1940; NAGC-like transcriptional regulator 1523616..1524836 Shigella boydii Sb227 3780525 YP_407986.2 CDS SBO_1543 NC_007613.1 1524961 1525656 D DTB synthetase; dethiobiotin synthase; involved in production of dethiobiotin from ATP and 7,8-diaminononanoate and carbon dioxide; contains magnesium; dithiobiotin synthetase 1524961..1525656 Shigella boydii Sb227 3780526 YP_407987.2 CDS SBO_1544 NC_007613.1 1525609 1526865 R Code: P; COG: COG0038; voltage-gated ClC-type chloride channel ClcB complement(1525609..1526865) Shigella boydii Sb227 3780527 YP_407988.2 CDS SBO_1545 NC_007613.1 1527060 1527674 R binds to the twin-arginine signal peptides of certain proteins, including dimethylsulfoxide reductase and trimethylamine N-oxide reductase that are translocated to the cytoplasmic membrane; twin-argninine leader-binding protein DmsD complement(1527060..1527674) Shigella boydii Sb227 3780528 YP_407989.1 CDS SBO_1546 NC_007613.1 1527717 1528571 R Code: R; COG: COG3302; DMSO reductase anchor subunit complement(1527717..1528571) Shigella boydii Sb227 3780529 YP_407990.2 CDS SBO_1547 NC_007613.1 1529028 1529936 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 1529028..1529936 Shigella boydii Sb227 3780530 YP_407991.1 CDS SBO_1548 NC_007613.1 1530540 1532966 R Code: C; COG: COG0243; oxidoreductase, major subunit complement(1530540..1532966) Shigella boydii Sb227 3780531 YP_407992.1 CDS SBO_1549 NC_007613.1 1533944 1534219 D Code: L; COG: COG2963; IS629 ORF1 1533944..1534219 Shigella boydii Sb227 3780532 YP_407993.1 CDS SBO_1550 NC_007613.1 1534219 1535106 D Code: L; COG: COG2801; IS629 ORF2 1534219..1535106 Shigella boydii Sb227 3780533 YP_407994.1 CDS SBO_1552 NC_007613.1 1536974 1537294 R hypothetical protein complement(1536974..1537294) Shigella boydii Sb227 3780535 YP_407995.2 CDS ynfC NC_007613.1 1537360 1538070 D hypothetical protein 1537360..1538070 Shigella boydii Sb227 3780536 YP_407996.1 CDS SBO_1555 NC_007613.1 1540409 1542688 D in Escherichia coli it may be involved in repression of type III secretion system (TTSS) genes of the host cell; involved with increased resistance to low pH; member of the prokaryotic molybdopterin-containing oxidoreductase family; oxidoreductase 1540409..1542688 Shigella boydii Sb227 3780538 YP_407997.1 CDS SBO_1556 NC_007613.1 1542936 1543133 D hypothetical protein 1542936..1543133 Shigella boydii Sb227 3780539 YP_407998.1 CDS SBO_1557 NC_007613.1 1543208 1543969 D regulates the cellular response to acid resistance; transcriptional regulator YdeO 1543208..1543969 Shigella boydii Sb227 3780540 YP_407999.1 CDS SBO_1558 NC_007613.1 1544371 1546053 D Code: P; COG: COG3119; sulfatase 1544371..1546053 Shigella boydii Sb227 3780541 YP_408000.1 CDS SBO_1559 NC_007613.1 1546090 1547262 D Code: R; COG: COG0641; hypothetical protein 1546090..1547262 Shigella boydii Sb227 3780542 YP_408001.1 CDS yddB NC_007613.1 1549282 1551654 D hypothetical protein 1549282..1551654 Shigella boydii Sb227 3780544 YP_408002.1 CDS pqqL NC_007613.1 1551699 1554494 D Code: R; COG: COG0612; peptidase 1551699..1554494 Shigella boydii Sb227 3780545 YP_408003.1 CDS gadB NC_007613.1 1554856 1556256 D Code: E; COG: COG0076; glutamate decarboxylase 1554856..1556256 Shigella boydii Sb227 3780546 YP_408004.1 CDS xasA NC_007613.1 1556412 1557947 D Code: E; COG: COG0531; acid sensitivity protein 1556412..1557947 Shigella boydii Sb227 3780547 YP_408005.1 CDS SBO_1565 NC_007613.1 1558078 1559397 D Code: S; COG: COG1649; hypothetical protein 1558078..1559397 Shigella boydii Sb227 3780548 YP_408006.1 CDS SBO_1566 NC_007613.1 1559769 1560491 D hypothetical protein 1559769..1560491 Shigella boydii Sb227 3780549 YP_408007.1 CDS SBO_1567 NC_007613.1 1560524 1561150 D Code: T; COG: COG2199; hypothetical protein 1560524..1561150 Shigella boydii Sb227 3780550 YP_408008.1 CDS SBO_1568 NC_007613.1 1561151 1563574 D heme-regulated phosphodiesterase with phosphodiesterase activity with cAMP but not with cGMP, bis(p-nitrophenyl) phosphate or p-nitrophenyl phosphate; cAMP phosphodiesterase 1561151..1563574 Shigella boydii Sb227 3780551 YP_408009.1 CDS SBO_1569 NC_007613.1 1563832 1564413 D catalyzes the hydrolysis of D-alanyl-D-alanine dipeptide: Zn dependent; involved in peptidoglycan synthesis; D-alanyl-D-alanine dipeptidase 1563832..1564413 Shigella boydii Sb227 3780552 YP_408010.1 CDS SBO_1570 NC_007613.1 1564427 1565977 D Code: E; COG: COG0747; hemin-binding lipoprotein 1564427..1565977 Shigella boydii Sb227 3780553 YP_408011.1 CDS SBO_1571 NC_007613.1 1565979 1567001 D Code: EP; COG: COG0601; transport system permease 1565979..1567001 Shigella boydii Sb227 3780554 YP_408012.1 CDS SBO_1572 NC_007613.1 1566998 1567894 D Code: EP; COG: COG1173; ATP-dependent peptide transporter membrane subunit 1566998..1567894 Shigella boydii Sb227 3780555 YP_408013.1 CDS SBO_1573 NC_007613.1 1567891 1568877 D Code: EP; COG: COG0444; ABC transporter ATP-binding protein 1567891..1568877 Shigella boydii Sb227 3780556 YP_408014.1 CDS SBO_1574 NC_007613.1 1568870 1569796 D Code: EP; COG: COG1124; ABC transporter ATP-binding protein 1568870..1569796 Shigella boydii Sb227 3780557 YP_408015.1 CDS osmC NC_007613.1 1569852 1570283 R Code: O; COG: COG1764; osmotically inducible protein complement(1569852..1570283) Shigella boydii Sb227 3780558 YP_408016.2 CDS SBO_1576 NC_007613.1 1570629 1570844 D biofilm-dependent modulation protein 1570629..1570844 Shigella boydii Sb227 3780559 YP_408017.1 CDS rpsV NC_007613.1 1570946 1571083 D protein D; stationary-phase-induced ribosome-associated; in Escherichia coli this protein becomes associated with the ribosome; expression increases during stationary phase; 30S ribosomal subunit S22 1570946..1571083 Shigella boydii Sb227 3780560 YP_408018.2 CDS sfcA NC_007613.1 1571240 1572937 D malic enzyme; malic enzyme; oxaloacetate-decarboxylating; NAD-dependent; catalyzes the formation of pyruvate form malate; malate dehydrogenase 1571240..1572937 Shigella boydii Sb227 3780561 YP_408019.1 CDS yddM NC_007613.1 1574149 1574511 D Code: R; COG: COG3093; hypothetical protein 1574149..1574511 Shigella boydii Sb227 3780563 YP_408020.1 CDS fdnI NC_007613.1 1574562 1575215 R nitrate-inducible, cytochrome b556(fdn) component of formate dehydrogenase; formate dehydrogenase-N subunit gamma complement(1574562..1575215) Shigella boydii Sb227 3780564 YP_408021.1 CDS fdnH NC_007613.1 1575208 1576092 R Code: C; COG: COG0437; formate dehydrogenase N, nitrate-inducible, iron-sulfur subunit beta complement(1575208..1576092) Shigella boydii Sb227 3780565 YP_408022.1 CDS fdnG NC_007613.1 1576105 1579152 R Code: C; COG: COG0243; formate dehydrogenase N subunit nitrate-inducible subunit alpha complement(1576105..1579152) Shigella boydii Sb227 3780566 YP_408023.1 CDS yddG NC_007613.1 1579384 1580265 D Code: GER; COG: COG0697; hypothetical protein 1579384..1580265 Shigella boydii Sb227 3780567 YP_408024.1 CDS SBO_1585 NC_007613.1 1580524 1580814 D Code: M; COG: COG3203; outer membrane porin protein 1580524..1580814 Shigella boydii Sb227 3780568 YP_408025.1 CDS SBO_1586 NC_007613.1 1580831 1581040 R IS1 encoded protein complement(1580831..1581040) Shigella boydii Sb227 3780569 YP_408026.1 CDS insB NC_007613.1 1581115 1581618 D Code: L; COG: COG1662; IS1 ORF2 1581115..1581618 Shigella boydii Sb227 3780570 YP_408027.2 CDS SBO_1588 NC_007613.1 1582273 1583178 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 1582273..1583178 Shigella boydii Sb227 3780571 YP_408028.1 CDS SBO_1590 NC_007613.1 1583209 1583442 R hypothetical protein complement(1583209..1583442) Shigella boydii Sb227 3780573 YP_408029.1 CDS SBO_1589 NC_007613.1 1583381 1583596 D hypothetical protein 1583381..1583596 Shigella boydii Sb227 3780572 YP_408030.1 CDS insB NC_007613.1 1584023 1584526 R Code: L; COG: COG1662; IS1 ORF2 complement(1584023..1584526) Shigella boydii Sb227 3780574 YP_408031.1 CDS SBO_1592 NC_007613.1 1584601 1584807 D IS1 encoded protein 1584601..1584807 Shigella boydii Sb227 3780575 YP_408032.1 CDS SBO_1593 NC_007613.1 1584836 1585453 R Code: O; COG: COG0625; transferase complement(1584836..1585453) Shigella boydii Sb227 3780576 YP_408033.1 CDS ansP NC_007613.1 1585669 1587219 D Code: E; COG: COG1113; L-asparagine permease 1585669..1587219 Shigella boydii Sb227 3780577 YP_408034.1 CDS SBO_1595 NC_007613.1 1587332 1588393 R Code: S; COG: COG3391; receptor complement(1587332..1588393) Shigella boydii Sb227 3780578 YP_408035.1 CDS SBO_1596 NC_007613.1 1588635 1590737 D Code: P; COG: COG1629; outer membrane receptor for iron transport 1588635..1590737 Shigella boydii Sb227 3780579 YP_408036.1 CDS SBO_1597 NC_007613.1 1590773 1591012 R IS1 encoded protein complement(1590773..1591012) Shigella boydii Sb227 3780580 YP_408037.1 CDS insB NC_007613.1 1591087 1591590 D Code: L; COG: COG1662; IS1 ORF2 1591087..1591590 Shigella boydii Sb227 3780581 YP_408038.1 CDS SBO_1600 NC_007613.1 1592713 1593231 D Code: M; COG: COG1247; resistance protein 1592713..1593231 Shigella boydii Sb227 3780583 YP_408039.1 CDS SBO_1601 NC_007613.1 1593228 1593677 D Code: S; COG: COG3238; hypothetical protein 1593228..1593677 Shigella boydii Sb227 3780584 YP_408040.1 CDS SBO_1602 NC_007613.1 1593678 1593911 R hypothetical protein complement(1593678..1593911) Shigella boydii Sb227 3780585 YP_408041.1 CDS SBO_1603 NC_007613.1 1593997 1594245 R hypothetical protein complement(1593997..1594245) Shigella boydii Sb227 3780586 YP_408042.1 CDS SBO_1604 NC_007613.1 1594770 1594994 R IS1 encoded protein complement(1594770..1594994) Shigella boydii Sb227 3780587 YP_408043.2 CDS SBO_1605 NC_007613.1 1595563 1596468 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 1595563..1596468 Shigella boydii Sb227 3780588 YP_408044.1 CDS insB NC_007613.1 1596453 1596905 D Code: L; COG: COG1662; IS1 ORF2 1596453..1596905 Shigella boydii Sb227 3780589 YP_408045.1 CDS SBO_1607 NC_007613.1 1596907 1597188 D Code: L; COG: COG2963; IS600 ORF1 1596907..1597188 Shigella boydii Sb227 3780590 YP_408046.1 CDS SBO_1608 NC_007613.1 1597329 1598042 D Code: L; COG: COG2801; IS600 ORF2 1597329..1598042 Shigella boydii Sb227 3780591 YP_408047.1 CDS SBO_1609 NC_007613.1 1598070 1598333 D hypothetical protein 1598070..1598333 Shigella boydii Sb227 3780592 YP_408048.1 CDS insB NC_007613.1 1598585 1599088 R Code: L; COG: COG1662; IS1 ORF2 complement(1598585..1599088) Shigella boydii Sb227 3780593 YP_408049.1 CDS ydeJ NC_007613.1 1599358 1599807 D Code: R; COG: COG1546; competence damage-inducible protein A 1599358..1599807 Shigella boydii Sb227 3780594 YP_408050.1 CDS dcp NC_007613.1 1599852 1601897 R Code: E; COG: COG0339; dipeptidyl carboxypeptidase II complement(1599852..1601897) Shigella boydii Sb227 3780595 YP_408051.1 CDS ydfG NC_007613.1 1602034 1602780 D NADP(+)-dependent; catalyzes the formation of 2-aminomalonate-semialdehyde from L-serine; can also use 3-hydroxybutyrate, 3-hydroxy-isobutyrate, D-threonine, L-allo-threonine,D-serine; 3-hydroxy acid dehydrogenase 1602034..1602780 Shigella boydii Sb227 3780596 YP_408052.1 CDS ydfH NC_007613.1 1602869 1603735 D Code: K; COG: COG1802; hypothetical protein 1602869..1603735 Shigella boydii Sb227 3780597 YP_408053.1 CDS SBO_1615 NC_007613.1 1603732 1603935 D hypothetical protein 1603732..1603935 Shigella boydii Sb227 3780598 YP_408054.1 CDS ydfI NC_007613.1 1603971 1605431 R Code: G; COG: COG0246; oxidoreductase complement(1603971..1605431) Shigella boydii Sb227 3780599 YP_408055.1 CDS insB NC_007613.1 1605690 1606193 R Code: L; COG: COG1662; IS1 ORF2 complement(1605690..1606193) Shigella boydii Sb227 3780600 YP_408056.1 CDS SBO_1618 NC_007613.1 1606268 1606495 D IS1 encoded protein 1606268..1606495 Shigella boydii Sb227 3780601 YP_408057.1 CDS ipaH_5 NC_007613.1 1606760 1608511 D Code: S; COG: COG4886; invasion plasmid antigen 1606760..1608511 Shigella boydii Sb227 3780602 YP_408058.1 CDS SBO_1620 NC_007613.1 1608691 1609248 R prophage tail protein complement(1608691..1609248) Shigella boydii Sb227 3780603 YP_408059.1 CDS SBO_1621 NC_007613.1 1609145 1610104 R phage tail fiber protein complement(1609145..1610104) Shigella boydii Sb227 3780604 YP_408060.1 CDS SBO_1622 NC_007613.1 1610127 1610432 R tail component encoded by cryptic prophage complement(1610127..1610432) Shigella boydii Sb227 3780605 YP_408061.1 CDS SBO_1623 NC_007613.1 1610496 1611095 R Code: M; COG: COG3637; membrane protein complement(1610496..1611095) Shigella boydii Sb227 3780606 YP_408062.1 CDS SBO_1624 NC_007613.1 1611163 1614642 R Code: S; COG: COG4733; host specificity protein complement(1611163..1614642) Shigella boydii Sb227 3780607 YP_408063.1 CDS SBO_1625 NC_007613.1 1614703 1615278 R Code: S; COG: COG4723; prophage tail protein complement(1614703..1615278) Shigella boydii Sb227 3780608 YP_408064.1 CDS SBO_1626 NC_007613.1 1615242 1615796 R Code: M; COG: COG0791; tail assembly protein complement(1615242..1615796) Shigella boydii Sb227 3780609 YP_408065.1 CDS SBO_1627 NC_007613.1 1615990 1616571 R Code: S; COG: COG4672; minor tail protein complement(1615990..1616571) Shigella boydii Sb227 3780610 YP_408066.1 CDS SBO_1628 NC_007613.1 1616689 1617018 R Code: S; COG: COG4718; minor tail protein complement(1616689..1617018) Shigella boydii Sb227 3780611 YP_408067.1 CDS SBO_1629 NC_007613.1 1617018 1620059 R Code: S; COG: COG5281; tail length tape measure protein complement(1617018..1620059) Shigella boydii Sb227 3780612 YP_408068.1 CDS SBO_1630 NC_007613.1 1620031 1620252 R prophage tail protein complement(1620031..1620252) Shigella boydii Sb227 3780613 YP_408069.1 CDS SBO_1631 NC_007613.1 1620368 1620754 R prophage tail protein complement(1620368..1620754) Shigella boydii Sb227 3780614 YP_408070.1 CDS SBO_1632 NC_007613.1 1620813 1621553 R Code: N; COG: COG5492; prophage tail protein complement(1620813..1621553) Shigella boydii Sb227 3780615 YP_408071.1 CDS SBO_1633 NC_007613.1 1621564 1621965 R prophage tail protein complement(1621564..1621965) Shigella boydii Sb227 3780616 YP_408072.1 CDS SBO_1634 NC_007613.1 1621962 1622549 R prophage tail protein complement(1621962..1622549) Shigella boydii Sb227 3780617 YP_408073.1 CDS SBO_1635 NC_007613.1 1622781 1623200 D Code: L; COG: COG2963; ISSfl4 ORF1 1622781..1623200 Shigella boydii Sb227 3780618 YP_408074.1 CDS SBO_1636 NC_007613.1 1623576 1624103 D protein encoded within IS 1623576..1624103 Shigella boydii Sb227 3780619 YP_408075.1 CDS SBO_1637 NC_007613.1 1624173 1625168 D Code: L; COG: COG3436; protein encoded within IS 1624173..1625168 Shigella boydii Sb227 3780620 YP_408076.1 CDS SBO_1638 NC_007613.1 1625222 1625428 D IS911 ORF2 1625222..1625428 Shigella boydii Sb227 3780621 YP_408077.1 CDS SBO_1640 NC_007613.1 1625903 1626850 R Code: T; COG: COG2199; hypothetical protein complement(1625903..1626850) Shigella boydii Sb227 3780623 YP_408078.1 CDS SBO_1641 NC_007613.1 1627460 1627819 R hypothetical protein complement(1627460..1627819) Shigella boydii Sb227 3780624 YP_408079.1 CDS SBO_1643 NC_007613.1 1628808 1630220 R in Escherichia coli this enzyme appears to be an NAD+/NADP+-dependent succinate semialdehyde dehydrogenase; succinate semialdehyde dehydrogenase complement(1628808..1630220) Shigella boydii Sb227 3780626 YP_408080.1 CDS yneJ NC_007613.1 1630297 1631178 D Code: K; COG: COG0583; LysR family transcriptional regulator 1630297..1631178 Shigella boydii Sb227 3780627 YP_408081.1 CDS SBO_1645 NC_007613.1 1631663 1632370 D hypothetical protein 1631663..1632370 Shigella boydii Sb227 3780628 YP_408082.1 CDS ydeA NC_007613.1 1632520 1633710 D Code: G; COG: COG2814; sugar efflux transporter 1632520..1633710 Shigella boydii Sb227 3780629 YP_408083.1 CDS ydeB NC_007613.1 1633735 1634400 R protein involved in resistance to different drugs (tetracycline, chloramphenicol, beta-lactams, and quinolones); part of the multiple antibiotic resistance (mar) locus, which is composed by the genes marC and marRAB; unknown function; multiple drug resistance protein MarC complement(1633735..1634400) Shigella boydii Sb227 3780630 YP_408084.2 CDS marR NC_007613.1 1634612 1635046 D repressor of mar operon; Repressor of the marRAB operon which is involved in the activation of both antibiotic resistance and oxidative stress genes; DNA-binding transcriptional repressor MarR 1634612..1635046 Shigella boydii Sb227 3780631 YP_408085.2 CDS marA NC_007613.1 1635066 1635449 D transcriptional activator of defense systems; transcriptional activator of genes involved in the multiple antibiotic resistance (Mar) phenotype; also activates sodA, zwf and micF; DNA-binding transcriptional activator MarA 1635066..1635449 Shigella boydii Sb227 3780632 YP_408086.1 CDS marB NC_007613.1 1635481 1635699 D hypothetical protein 1635481..1635699 Shigella boydii Sb227 3780633 YP_408087.1 CDS SBO_1652 NC_007613.1 1636535 1636861 D Code: L; COG: COG2963; IS629 ORF1 1636535..1636861 Shigella boydii Sb227 3780635 YP_408088.1 CDS SBO_1653 NC_007613.1 1636861 1637748 D Code: L; COG: COG2801; IS629 ORF2 1636861..1637748 Shigella boydii Sb227 3780636 YP_408089.1 CDS SBO_1654 NC_007613.1 1638284 1638613 R hypothetical protein complement(1638284..1638613) Shigella boydii Sb227 3780637 YP_408090.1 CDS insB NC_007613.1 1638763 1639266 R Code: L; COG: COG1662; IS1 ORF2 complement(1638763..1639266) Shigella boydii Sb227 3780638 YP_408091.1 CDS SBO_1656 NC_007613.1 1639341 1639547 D IS1 encoded protein 1639341..1639547 Shigella boydii Sb227 3780639 YP_408092.1 CDS tehB NC_007613.1 1639923 1640516 R with TehA confers resistance to tellurite; tellurite resistance protein TehB complement(1639923..1640516) Shigella boydii Sb227 3780640 YP_408093.1 CDS tehA NC_007613.1 1640513 1641505 R Code: P; COG: COG1275; potassium-tellurite ethidium and proflavin transporter complement(1640513..1641505) Shigella boydii Sb227 3780641 YP_408094.1 CDS SBO_1659 NC_007613.1 1641845 1642609 D hypothetical protein 1641845..1642609 Shigella boydii Sb227 3780642 YP_408095.1 CDS rimL NC_007613.1 1642604 1643140 R acetylation of N-terminal serine of 30S ribosomal subunit protein L7; Code: J; COG: COG1670; ribosomal-protein-L7/L12-serine acetyltransferase complement(1642604..1643140) Shigella boydii Sb227 3780643 YP_408096.1 CDS ydcH NC_007613.1 1643203 1643370 R Code: S; COG: COG2841; hypothetical protein complement(1643203..1643370) Shigella boydii Sb227 3780644 YP_408097.1 CDS SBO_1662 NC_007613.1 1643443 1643646 D hypothetical protein 1643443..1643646 Shigella boydii Sb227 3780645 YP_408098.1 CDS mdoD NC_007613.1 1643567 1645222 R involved in the control of the structural glucose backbone of osmoregulated periplasmic glucans; glucan biosynthesis protein D complement(1643567..1645222) Shigella boydii Sb227 3780646 YP_408099.1 CDS SBO_1664 NC_007613.1 1645447 1646790 R Code: S; COG: COG5383; hypothetical protein complement(1645447..1646790) Shigella boydii Sb227 3780647 YP_408100.1 CDS insB NC_007613.1 1650238 1650741 R Code: L; COG: COG1662; IS1 ORF2 complement(1650238..1650741) Shigella boydii Sb227 3780650 YP_408101.1 CDS SBO_1668 NC_007613.1 1650816 1651037 D IS1 encoded protein 1650816..1651037 Shigella boydii Sb227 3780651 YP_408102.2 CDS cybB NC_007613.1 1651190 1651720 R B-type di-heme cytochrome with a major alpha-absorption peak at 561 nm and a minor peak at 555 nm; cytochrome b561 complement(1651190..1651720) Shigella boydii Sb227 3780652 YP_408103.1 CDS SBO_1670 NC_007613.1 1651997 1652836 R Code: L; COG: COG2801; IS911 ORF2 complement(1651997..1652836) Shigella boydii Sb227 3780653 YP_408104.1 CDS gapC NC_007613.1 1653212 1654162 D Code: G; COG: COG0057; glyceraldehyde-3-phosphate dehydrogenase 1653212..1654162 Shigella boydii Sb227 3780654 YP_408105.1 CDS aldA NC_007613.1 1654361 1655644 R Code: C; COG: COG1012; aldehyde dehydrogenase complement(1654361..1655644) Shigella boydii Sb227 3780655 YP_408106.1 CDS ydcF NC_007613.1 1655799 1656641 R Code: S; COG: COG1434; hypothetical protein complement(1655799..1656641) Shigella boydii Sb227 3780656 YP_408107.1 CDS hrpA NC_007613.1 1656913 1660758 R involved in the post-transcriptional processing of the daa operon mRNA, which encodes proteins involved in fimbrial biogenesis of an enteropathogenic E. coli strain; ATP-dependent RNA helicase HrpA complement(1656913..1660758) Shigella boydii Sb227 3780657 YP_408108.1 CDS acpD NC_007613.1 1661016 1661621 D FMN-dependent; requires NADH; catalyzes the cleavage of azo bond in aromatic azo compounds; azoreductase 1661016..1661621 Shigella boydii Sb227 3780658 YP_408109.1 CDS ynbD NC_007613.1 1661672 1662964 R Code: I; COG: COG0671; hypothetical protein complement(1661672..1662964) Shigella boydii Sb227 3780659 YP_408110.1 CDS SBO_1677 NC_007613.1 1662978 1664330 R Code: QR; COG: COG0500; hypothetical protein complement(1662978..1664330) Shigella boydii Sb227 3780660 YP_408111.1 CDS insB NC_007613.1 1664667 1665170 R Code: L; COG: COG1662; IS1 ORF2 complement(1664667..1665170) Shigella boydii Sb227 3780661 YP_408112.1 CDS SBO_1679 NC_007613.1 1665245 1665427 D IS1 encoded protein 1665245..1665427 Shigella boydii Sb227 3780662 YP_408113.1 CDS SBO_1680 NC_007613.1 1665575 1665916 D Code: I; COG: COG0558; hypothetical protein 1665575..1665916 Shigella boydii Sb227 3780663 YP_408114.1 CDS SBO_1681 NC_007613.1 1665877 1666086 R IS1 encoded protein complement(1665877..1666086) Shigella boydii Sb227 3780664 YP_408115.1 CDS insB NC_007613.1 1666161 1666664 D Code: L; COG: COG1662; IS1 ORF2 1666161..1666664 Shigella boydii Sb227 3780665 YP_408116.1 CDS ydbL NC_007613.1 1666658 1667005 R Code: S; COG: COG3784; hypothetical protein complement(1666658..1667005) Shigella boydii Sb227 3780666 YP_408117.1 CDS ynbE NC_007613.1 1667010 1667195 R hypothetical protein complement(1667010..1667195) Shigella boydii Sb227 3780667 YP_408118.1 CDS ydbH NC_007613.1 1667192 1669831 R hypothetical protein complement(1667192..1669831) Shigella boydii Sb227 3780668 YP_408119.1 CDS ldhA NC_007613.1 1670039 1671028 D Code: CHR; COG: COG1052; fermentative D-lactate dehydrogenase, NAD-dependent 1670039..1671028 Shigella boydii Sb227 3780669 YP_408120.1 CDS hslJ NC_007613.1 1671139 1671561 D Code: O; COG: COG3187; heat-inducible protein 1671139..1671561 Shigella boydii Sb227 3780670 YP_408121.1 CDS ydbK NC_007613.1 1672098 1675622 D Code: C; COG: COG0674; oxidoreductase, Fe-S subunit 1672098..1675622 Shigella boydii Sb227 3780671 YP_408122.1 CDS SBO_1689 NC_007613.1 1675988 1677121 D Code: M; COG: COG3203; outer membrane protein 1675988..1677121 Shigella boydii Sb227 3780672 YP_408123.1 CDS ynaF NC_007613.1 1677190 1677696 D Code: T; COG: COG0589; filament protein 1677190..1677696 Shigella boydii Sb227 3780673 YP_408124.1 CDS sitA NC_007613.1 1678253 1679167 D Code: P; COG: COG0803; Iron transport protein, periplasmic-binding protein 1678253..1679167 Shigella boydii Sb227 3780674 YP_408125.1 CDS sitB NC_007613.1 1679167 1679994 D Code: P; COG: COG1121; Iron transport protein, ATP-binding component 1679167..1679994 Shigella boydii Sb227 3780675 YP_408126.1 CDS sitC NC_007613.1 1679991 1680848 D Code: P; COG: COG1108; iron transport protein, inner membrane component 1679991..1680848 Shigella boydii Sb227 3780676 YP_408127.1 CDS sitD NC_007613.1 1680845 1681702 D Code: P; COG: COG1108; Iron transport protein, inner membrane component 1680845..1681702 Shigella boydii Sb227 3780677 YP_408128.1 CDS SBO_1695 NC_007613.1 1682030 1682593 R ISSfl4 ORF3 complement(1682030..1682593) Shigella boydii Sb227 3780678 YP_408129.1 CDS SBO_1696 NC_007613.1 1682852 1683739 R Code: L; COG: COG2801; IS629 ORF2 complement(1682852..1683739) Shigella boydii Sb227 3780679 YP_408130.1 CDS SBO_1697 NC_007613.1 1683739 1684014 R Code: L; COG: COG2963; IS629 ORF1 complement(1683739..1684014) Shigella boydii Sb227 3780680 YP_408131.1 CDS SBO_1698 NC_007613.1 1684091 1684945 R Code: L; COG: COG3436; ISSfl4 ORF3 complement(1684091..1684945) Shigella boydii Sb227 3780681 YP_408132.1 CDS SBO_1699 NC_007613.1 1685422 1685805 R transposase complement(1685422..1685805) Shigella boydii Sb227 3780682 YP_408133.1 CDS SBO_1700 NC_007613.1 1685815 1686654 R Code: L; COG: COG2801; IS911 ORF2 complement(1685815..1686654) Shigella boydii Sb227 3780683 YP_408134.1 CDS SBO_1704 NC_007613.1 1687542 1688096 R hypothetical protein complement(1687542..1688096) Shigella boydii Sb227 3780687 YP_408135.1 CDS SBO_1705 NC_007613.1 1688152 1688865 R Code: L; COG: COG2801; IS600 ORF2 complement(1688152..1688865) Shigella boydii Sb227 3780688 YP_408136.1 CDS SBO_1706 NC_007613.1 1689006 1689308 R Code: L; COG: COG2963; IS600 ORF1 complement(1689006..1689308) Shigella boydii Sb227 3780689 YP_408137.1 CDS SBO_1707 NC_007613.1 1689478 1689753 D Code: L; COG: COG2963; IS629 ORF1 1689478..1689753 Shigella boydii Sb227 3780690 YP_408138.1 CDS SBO_1708 NC_007613.1 1689753 1690640 D Code: L; COG: COG2801; IS629 ORF2 1689753..1690640 Shigella boydii Sb227 3780691 YP_408139.1 CDS SBO_1709 NC_007613.1 1691451 1692137 R Code: S; COG: COG1636; hypothetical protein complement(1691451..1692137) Shigella boydii Sb227 3780692 YP_408140.1 CDS SBO_1710 NC_007613.1 1692614 1693222 D Code: L; COG: COG2801; IS911 ORF2 1692614..1693222 Shigella boydii Sb227 3780693 YP_408141.1 CDS SBO_1711 NC_007613.1 1693225 1694112 R Code: L; COG: COG2801; IS629 ORF2 complement(1693225..1694112) Shigella boydii Sb227 3780694 YP_408142.1 CDS SBO_1712 NC_007613.1 1694121 1694387 R Code: L; COG: COG2963; IS629 ORF1 complement(1694121..1694387) Shigella boydii Sb227 3780695 YP_408143.1 CDS ydaC NC_007613.1 1694629 1694817 D Rac prophage; hypothetical protein 1694629..1694817 Shigella boydii Sb227 3780696 YP_408144.1 CDS SBO_1714 NC_007613.1 1695142 1695873 R Code: L; COG: COG2801; IS600 ORF2 complement(1695142..1695873) Shigella boydii Sb227 3780697 YP_408145.1 CDS SBO_1715 NC_007613.1 1696028 1696315 R Code: L; COG: COG2963; IS600 ORF1 complement(1696028..1696315) Shigella boydii Sb227 3780698 YP_408146.1 CDS SBO_1716 NC_007613.1 1696390 1697625 D Code: L; COG: COG0582; transposase 1696390..1697625 Shigella boydii Sb227 3780699 YP_408147.1 CDS ydaO NC_007613.1 1697677 1698612 D TtcA; YdaO; catalyzes the thiolation of cytosine 32 in specific tRNAs; C32 tRNA thiolase 1697677..1698612 Shigella boydii Sb227 3780700 YP_408148.1 CDS dbpA NC_007613.1 1698741 1700114 R exhibits an RNA-dependent ATPase activity, specifically stimulated by bacterial 23S rRNA; ATP-dependent RNA helicase DbpA complement(1698741..1700114) Shigella boydii Sb227 3780701 YP_408149.1 CDS zntB NC_007613.1 1700560 1701543 R Code: P; COG: COG0598; zinc transporter complement(1700560..1701543) Shigella boydii Sb227 3780702 YP_408150.1 CDS SBO_1720 NC_007613.1 1701738 1703030 D Code: T; COG: COG2199; hypothetical protein 1701738..1703030 Shigella boydii Sb227 3780703 YP_408151.1 CDS ydaL NC_007613.1 1703051 1703614 R Code: S; COG: COG2840; hypothetical protein complement(1703051..1703614) Shigella boydii Sb227 3780704 YP_408152.1 CDS ydaK NC_007613.1 1703944 1704852 R Code: K; COG: COG0583; DNA-binding transcriptional regulator complement(1703944..1704852) Shigella boydii Sb227 3780705 YP_408153.1 CDS SBO_1724 NC_007613.1 1706328 1707773 D Code: R; COG: COG1473; hypothetical protein 1706328..1707773 Shigella boydii Sb227 3780707 YP_408154.1 CDS abgT NC_007613.1 1707900 1709336 D Code: H; COG: COG2978; aminobenzoyl-glutamate transporter 1707900..1709336 Shigella boydii Sb227 3780708 YP_408155.1 CDS ogt NC_007613.1 1709347 1709862 D Code: L; COG: COG0350; O-6-alkylguanine-DNA:cysteine-protein methyltransferase 1709347..1709862 Shigella boydii Sb227 3780709 YP_408156.1 CDS fnr NC_007613.1 1710057 1710809 D transcriptional regulation of aerobic, anaerobic respiration, osmotic balance; Global transcription factor that controls the expression of over 100 target genes in response to anoxia; fumarate/nitrate reduction transcriptional regulator 1710057..1710809 Shigella boydii Sb227 3780710 YP_408157.1 CDS ydaA NC_007613.1 1710961 1711911 D with UspC and UspD is involved in resistance to UV irradiation; universal stress protein UspE 1710961..1711911 Shigella boydii Sb227 3780711 YP_408158.1 CDS ynaJ NC_007613.1 1711961 1712173 R hypothetical protein complement(1711961..1712173) Shigella boydii Sb227 3780712 YP_408159.1 CDS insB NC_007613.1 1712364 1712867 R Code: L; COG: COG1662; IS1 ORF2 complement(1712364..1712867) Shigella boydii Sb227 3780713 YP_408160.1 CDS SBO_1731 NC_007613.1 1712942 1713154 D IS1 encoded protein 1712942..1713154 Shigella boydii Sb227 3780714 YP_408161.1 CDS SBO_1732 NC_007613.1 1713240 1714271 D Code: M; COG: COG0668; hypothetical protein 1713240..1714271 Shigella boydii Sb227 3780715 YP_408162.1 CDS SBO_1733 NC_007613.1 1714322 1715956 R Code: E; COG: COG4166; transport periplasmic protein complement(1714322..1715956) Shigella boydii Sb227 3780716 YP_408163.1 CDS ycjZ NC_007613.1 1716272 1717171 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(1716272..1717171) Shigella boydii Sb227 3780717 YP_408164.2 CDS SBO_1735 NC_007613.1 1717218 1718123 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(1717218..1718123) Shigella boydii Sb227 3780718 YP_408165.1 CDS SBO_1736 NC_007613.1 1718081 1718446 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(1718081..1718446) Shigella boydii Sb227 3780719 YP_408166.1 CDS SBO_1737 NC_007613.1 1718911 1719546 D Code: R; COG: COG1073; hypothetical protein 1718911..1719546 Shigella boydii Sb227 3780720 YP_408167.1 CDS SBO_1738 NC_007613.1 1719546 1719911 D Code: R; COG: COG1073; dienelactone hydrolase and related enzyme 1719546..1719911 Shigella boydii Sb227 3780721 YP_408168.1 CDS insB NC_007613.1 1720139 1720642 D Code: L; COG: COG1662; IS1 ORF2 1720139..1720642 Shigella boydii Sb227 3780722 YP_408169.1 CDS SBO_1740 NC_007613.1 1720662 1721255 D Code: R; COG: COG1073; hypothetical protein 1720662..1721255 Shigella boydii Sb227 3780723 YP_408170.1 CDS SBO_1741 NC_007613.1 1721365 1722078 R Code: L; COG: COG2801; IS600 ORF2 complement(1721365..1722078) Shigella boydii Sb227 3780724 YP_408171.1 CDS SBO_1742 NC_007613.1 1722233 1722520 R Code: L; COG: COG2963; IS600 ORF1 complement(1722233..1722520) Shigella boydii Sb227 3780725 YP_408172.1 CDS SBO_1743 NC_007613.1 1722587 1723177 D Code: MG; COG: COG0702; hypothetical protein 1722587..1723177 Shigella boydii Sb227 3780726 YP_408173.1 CDS ycjI NC_007613.1 1723427 1724215 D Code: E; COG: COG2866; murein peptide amidase A 1723427..1724215 Shigella boydii Sb227 3780727 YP_408174.1 CDS ycjG NC_007613.1 1724190 1725104 R Code: MR; COG: COG4948; muconate cycloisomerase I complement(1724190..1725104) Shigella boydii Sb227 3780728 YP_408175.1 CDS tpx NC_007613.1 1725274 1725780 D antioxidant activity; thioredoxin-dependent thiol peroxidase; forms homodimers in solution; shows substrate specificity to alkyl hydroperoxides; periplasmic protein; thiol peroxidase 1725274..1725780 Shigella boydii Sb227 3780729 YP_408176.1 CDS tyrR NC_007613.1 1725824 1727365 R transcriptional regulation of aroF, aroG, tyrA and aromatic amino acid transport; regulates genes involved in the biosynthesis and transport of aromatic amino acids; DNA-binding transcriptional regulator TyrR complement(1725824..1727365) Shigella boydii Sb227 3780730 YP_408177.1 CDS ycjF NC_007613.1 1727513 1728574 R Code: S; COG: COG3768; hypothetical protein complement(1727513..1728574) Shigella boydii Sb227 3780731 YP_408178.1 CDS ycjX NC_007613.1 1728571 1729968 R EC 2.1 enzymes; Code: R; COG: COG3106; protein YcjX complement(1728571..1729968) Shigella boydii Sb227 3780732 YP_408179.1 CDS SBO_1750 NC_007613.1 1730062 1730292 R IS1 encoded protein complement(1730062..1730292) Shigella boydii Sb227 3780733 YP_408180.1 CDS insB NC_007613.1 1730367 1730870 D Code: L; COG: COG1662; IS1 ORF2 1730367..1730870 Shigella boydii Sb227 3780734 YP_408181.1 CDS insB NC_007613.1 1731278 1731781 R Code: L; COG: COG1662; IS1 ORF2 complement(1731278..1731781) Shigella boydii Sb227 3780735 YP_408182.1 CDS SBO_1753 NC_007613.1 1731856 1732071 D IS1 encoded protein 1731856..1732071 Shigella boydii Sb227 3780736 YP_408183.1 CDS pspE NC_007613.1 1732332 1732646 R rhodanese; catalyzes the formation of thiocyanate from thiosulfate and hydrogen cyanide; thiosulfate:cyanide sulfurtransferase complement(1732332..1732646) Shigella boydii Sb227 3780737 YP_408184.1 CDS pspD NC_007613.1 1732721 1732942 R peripheral inner membrane phage-shock protein complement(1732721..1732942) Shigella boydii Sb227 3780738 YP_408185.1 CDS pspC NC_007613.1 1732951 1733310 R activates phage shock-protein expression; with PsbB forms toxin/antitoxin pair; activates the psp operon in response to phage infection, exposure to ethanol or osmotic shock; DNA-binding transcriptional activator PspC complement(1732951..1733310) Shigella boydii Sb227 3780739 YP_408186.1 CDS pspB NC_007613.1 1733310 1733534 R acts together with PspC to induce psp operon during infection with phage, exposure to ethanol or osmotic shock; forms a complex with PspA and C; PspC is required for PspAB binding; phage shock protein B complement(1733310..1733534) Shigella boydii Sb227 3780740 YP_408187.1 CDS pspA NC_007613.1 1733588 1734256 R inner membrane protein; involved in maintaining membrane potential under membrane stress conditions; also acts as a negative transcriptional regulator of the phage shock protein (psp) operon(pspABCDE) by regulating the transcriptional activator PspF; phage shock protein PspA complement(1733588..1734256) Shigella boydii Sb227 3780741 YP_408188.2 CDS pspF NC_007613.1 1734422 1735399 D transcriptional activator for pspABCE which are induced in response to phage proteins, membrane altering stresses, and impaired proton expor; phage shock protein operon transcriptional activator 1734422..1735399 Shigella boydii Sb227 3780742 YP_408189.1 CDS goaG NC_007613.1 1735519 1736784 R putrescine-inducible GABA aminotransferase; catalyzes the formation of glutamate and succinate semialdehyde from 4-aminobutyrate and 2-oxoglutarate; 4-aminobutyrate transaminase complement(1735519..1736784) Shigella boydii Sb227 3780743 YP_408190.1 CDS ordL NC_007613.1 1736822 1738054 R Code: E; COG: COG0665; oxidoreductase complement(1736822..1738054) Shigella boydii Sb227 3780744 YP_408191.1 CDS aldH NC_007613.1 1738093 1739580 R prefers NADP over NAD; catalyzes the formation of gamma-glutamyl-gamma-aminobutyrate from Gamma-glutamyl-gamma-aminobutyraldehyde; involved in putrescine degradation; gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase complement(1738093..1739580) Shigella boydii Sb227 3780745 YP_408192.1 CDS ycjC NC_007613.1 1739855 1740412 R regulates genes involved in putrescine degradation; DNA-binding transcriptional repressor PuuR complement(1739855..1740412) Shigella boydii Sb227 3780746 YP_408193.1 CDS SBO_1765 NC_007613.1 1741336 1742832 D Code: E; COG: COG0174; glutamine synthetase 1741336..1742832 Shigella boydii Sb227 3780748 YP_408194.1 CDS ycjJ NC_007613.1 1743136 1744521 D Code: E; COG: COG0531; amino acid/amine transport protein 1743136..1744521 Shigella boydii Sb227 3780749 YP_408195.1 CDS ymjA NC_007613.1 1744655 1744900 D hypothetical protein 1744655..1744900 Shigella boydii Sb227 3780750 YP_408196.1 CDS sapA NC_007613.1 1745213 1746856 D similar to Salmonella peptide transport periplasmic protein; Code: E; COG: COG4166; protein SapA 1745213..1746856 Shigella boydii Sb227 3780751 YP_408197.1 CDS sapB NC_007613.1 1746853 1747818 D similar to Salmonella peptide transport periplasmic protein; Code: V; COG: COG4168; hypothetical protein 1746853..1747818 Shigella boydii Sb227 3780752 YP_408198.1 CDS sapC NC_007613.1 1747805 1748695 D siimilar to Salmonella peptide transport permease protein; Code: V; COG: COG4171; protein SapC protein 1747805..1748695 Shigella boydii Sb227 3780753 YP_408199.1 CDS sapD NC_007613.1 1748695 1749687 D Code: V; COG: COG4170; peptide ABC transporter ATP-binding protein 1748695..1749687 Shigella boydii Sb227 3780754 YP_408200.1 CDS sapF NC_007613.1 1749689 1750495 D Code: V; COG: COG4167; peptide ABC transporter ATP-binding protein 1749689..1750495 Shigella boydii Sb227 3780755 YP_408201.1 CDS ycjD NC_007613.1 1750563 1750916 D Code: S; COG: COG2852; hypothetical protein 1750563..1750916 Shigella boydii Sb227 3780756 YP_408202.1 CDS fabI NC_007613.1 1751284 1752072 D Catalyzes a key regulatory step in fatty acid biosynthesis; enoyl-ACP reductase 1751284..1752072 Shigella boydii Sb227 3780757 YP_408203.2 CDS yciW NC_007613.1 1752217 1753344 D Code: S; COG: COG4950; oxidoreductase 1752217..1753344 Shigella boydii Sb227 3780758 YP_408204.1 CDS rnb NC_007613.1 1753412 1755346 D mRNA degradation; Involved in mRNA degradation. Hydrolyzes single-stranded polyribonucleotides processively in the 3' to 5' direction; exoribonuclease II 1753412..1755346 Shigella boydii Sb227 3780759 YP_408205.1 CDS SBO_1777 NC_007613.1 1755525 1755707 R IS1 encoded protein complement(1755525..1755707) Shigella boydii Sb227 3780760 YP_408206.1 CDS insB NC_007613.1 1755782 1756285 D Code: L; COG: COG1662; IS1 ORF2 1755782..1756285 Shigella boydii Sb227 3780761 YP_408207.1 CDS yciR NC_007613.1 1756340 1758325 D c-di-GMP phosphodiesterase; probably degrades signalling molecule c-di-GMP; RNase II stability modulator 1756340..1758325 Shigella boydii Sb227 3780762 YP_408208.1 CDS SBO_1780 NC_007613.1 1758735 1759484 D Code: KG; COG: COG1349; DEOR-type transcriptional regulator 1758735..1759484 Shigella boydii Sb227 3780763 YP_408209.1 CDS osmB NC_007613.1 1759753 1759971 D lipoprotein 1759753..1759971 Shigella boydii Sb227 3780764 YP_408210.1 CDS yciH NC_007613.1 1760097 1760426 R involved in start site selection during the initiation of translation; translation initiation factor Sui1 complement(1760097..1760426) Shigella boydii Sb227 3780765 YP_408211.1 CDS pyrF NC_007613.1 1760423 1761160 R type 1 subfamily; involved in last step of pyrimidine biosynthesis; converts orotidine 5'-phosphate to UMP and carbon dioxide; OMP decarboxylase; OMPDCase; OMPdecase; orotidine 5'-phosphate decarboxylase complement(1760423..1761160) Shigella boydii Sb227 3780766 YP_408212.1 CDS yciM NC_007613.1 1761353 1762522 R Code: G; COG: COG2956; hypothetical protein complement(1761353..1762522) Shigella boydii Sb227 3780767 YP_408213.1 CDS yciS NC_007613.1 1762529 1762837 R Code: S; COG: COG3771; hypothetical protein complement(1762529..1762837) Shigella boydii Sb227 3780768 YP_408214.1 CDS pgpB NC_007613.1 1762986 1763750 R Code: I; COG: COG0671; phosphatidylglycerophosphatase B complement(1762986..1763750) Shigella boydii Sb227 3780769 YP_408215.1 CDS ribA NC_007613.1 1763920 1764510 D catalyzes the conversion of GTP to formate and 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine and diphosphate; GTP cyclohydrolase II 1763920..1764510 Shigella boydii Sb227 3780770 YP_408216.1 CDS cysB NC_007613.1 1768097 1769071 R LysR-type transcriptional regulator; contains helix-turn-helix (HTH) motif; in Escherichia coli this protein regulates cysteine biosynthesis by controlling expression of the cys regulon; autoregulates expression; crystal structure of Klebsiella aerogenes showed tetramer formation; transcriptional regulator CysB complement(1768097..1769071) Shigella boydii Sb227 3780772 YP_408217.1 CDS SBO_1790 NC_007613.1 1769132 1769425 R IS1 encoded protein complement(1769132..1769425) Shigella boydii Sb227 3780773 YP_408218.1 CDS insB NC_007613.1 1769500 1770003 D Code: L; COG: COG1662; IS1 ORF2 1769500..1770003 Shigella boydii Sb227 3780774 YP_408219.1 CDS topA NC_007613.1 1770058 1772655 R catalyzes the ATP-dependent breakage of single-stranded DNA followed by passage and rejoining, maintains net negative superhelicity; DNA topoisomerase I complement(1770058..1772655) Shigella boydii Sb227 3780775 YP_408220.1 CDS yciN NC_007613.1 1773035 1773286 D hypothetical protein 1773035..1773286 Shigella boydii Sb227 3780776 YP_408221.1 CDS sohB NC_007613.1 1773322 1774371 R SohB; periplasmic protein; member of the peptidase S49 family; periplasmic protease complement(1773322..1774371) Shigella boydii Sb227 3780777 YP_408222.1 CDS yciK NC_007613.1 1774591 1775349 D Code: IQR; COG: COG1028; short chain dehydrogenase 1774591..1775349 Shigella boydii Sb227 3780778 YP_408223.1 CDS btuR NC_007613.1 1775398 1775937 D catalyzes the formation of adenosylcob(III)yrinic acid a,c-diamide from cob(I)yrinic acid a,c-diamide; cob(I)yrinic acid a,c-diamide adenosyltransferase 1775398..1775937 Shigella boydii Sb227 3780779 YP_408224.1 CDS yciL NC_007613.1 1775977 1776849 R catalyzes the synthesis of pseudouridine from uracil-2605 in 23S ribosomal RNA; 23S rRNA pseudouridylate synthase B complement(1775977..1776849) Shigella boydii Sb227 3780780 YP_408225.1 CDS yciQ NC_007613.1 1777060 1778955 R hypothetical protein complement(1777060..1778955) Shigella boydii Sb227 3780781 YP_408226.1 CDS yciO NC_007613.1 1778983 1779639 R Code: J; COG: COG0009; hypothetical protein complement(1778983..1779639) Shigella boydii Sb227 3780782 YP_408227.1 CDS yciV NC_007613.1 1779600 1780481 R Code: R; COG: COG0613; hypothetical protein complement(1779600..1780481) Shigella boydii Sb227 3780783 YP_408229.1 CDS trpE NC_007613.1 1780755 1782317 D with component II, the glutamine amidotransferase, catalyzes the formation of anthranilate from chorismate and glutamine; anthranilate synthase component I 1780755..1782317 Shigella boydii Sb227 3780785 YP_408230.1 CDS trpD NC_007613.1 1782317 1783912 D glutamine amidotransferase and phosphoribosylanthranilate transferase; bifunctional anthranilate synthase II/anthranilate phosphoribosyltransferase; TrpD; forms a heterotetramer with Trp E and the complex catalyzes the formation of anthranilate from chorismate and glutamine; also catalyzes the formation of N-(5-phospho-D-ribosyl)-anthranilate from athranilate and 5-phospho-alpha-D-ribose 1-diphosphate; functions in tryptophan biosynthesis; bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase 1782317..1783912 Shigella boydii Sb227 3780786 YP_408231.1 CDS trpC NC_007613.1 1783913 1785274 D monomeric bifunctional protein; functions in tryptophan biosynthesis pathway; phosphoribosylanthranilate is rearranged to carboxyphenylaminodeoxyribulosephosphate which is then closed to form indole-3-glycerol phosphate; bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase 1783913..1785274 Shigella boydii Sb227 3780787 YP_408232.1 CDS trpB NC_007613.1 1785286 1786479 D catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate; tryptophan synthase subunit beta 1785286..1786479 Shigella boydii Sb227 3780788 YP_408233.1 CDS trpA NC_007613.1 1786479 1787285 D catalyzes the formation of indole and glyceraldehyde 3-phosphate from indoleglycerol phosphate in tryptophan biosynthesis; tryptophan synthase subunit alpha 1786479..1787285 Shigella boydii Sb227 3780789 YP_408234.1 CDS insB NC_007613.1 1787529 1788032 R Code: L; COG: COG1662; IS1 ORF2 complement(1787529..1788032) Shigella boydii Sb227 3780790 YP_408235.1 CDS SBO_1808 NC_007613.1 1788107 1788340 D IS1 encoded protein 1788107..1788340 Shigella boydii Sb227 3780791 YP_408236.1 CDS yciD NC_007613.1 1788337 1788975 R receptor for colicin S4; outer membrane protein W complement(1788337..1788975) Shigella boydii Sb227 3780792 YP_408237.1 CDS yciC NC_007613.1 1789332 1790075 D hypothetical protein 1789332..1790075 Shigella boydii Sb227 3780793 YP_408238.1 CDS yciB NC_007613.1 1790105 1790644 D Involved in cell division; probably involved in intracellular septation; intracellular septation protein A 1790105..1790644 Shigella boydii Sb227 3780794 YP_408239.1 CDS yciA NC_007613.1 1790749 1791147 D YciA; hydrolase that catalyzes the hydrolysis of the thioester bond in palmitoyl-CoA and malonyl-CoA; member of the the acyl coenzyme A hydrolase family of proteins; acyl-CoA thioester hydrolase 1790749..1791147 Shigella boydii Sb227 3780795 YP_408240.1 CDS tonB NC_007613.1 1791187 1791915 R energy transducer; uptake of iron, cyanocobalimin; sensitivity to phages, colicins; membrane spanning protein in TonB-ExbB-ExbD complex; transduces proton motive force of the cytoplasmic membrane to outer membrane transporters; involved in the transport of ron-siderophore complexes, vitamin B12 and colicins; transporter complement(1791187..1791915) Shigella boydii Sb227 3780796 YP_408241.2 CDS yciI NC_007613.1 1792130 1792426 D unknown function; YciI from Haemophilus influenzae presents crystal structure similarity to a muconolactone isomerase, but does not seem to catalyze any of the predicted reactions based on sequence and structure similarity; YciI-like protein 1792130..1792426 Shigella boydii Sb227 3780797 YP_408242.1 CDS SBO_1815 NC_007613.1 1792474 1793187 R Code: L; COG: COG2801; IS600 ORF2 complement(1792474..1793187) Shigella boydii Sb227 3780798 YP_408243.1 CDS SBO_1816 NC_007613.1 1793328 1793630 R Code: L; COG: COG2963; IS600 ORF1 complement(1793328..1793630) Shigella boydii Sb227 3780799 YP_408244.1 CDS kch NC_007613.1 1793994 1795247 D Code: P; COG: COG1226; voltage-gated potassium channel 1793994..1795247 Shigella boydii Sb227 3780800 YP_408245.1 CDS cls NC_007613.1 1795618 1797078 D a major membrane phospholipid; novobiocin sensitivity; catalyzes the transfer of a phosphatidyl group to phosphodidylglycerol to form cardiolipin (diphosphatidylglycerol); cardiolipin synthetase 1795618..1797078 Shigella boydii Sb227 3780801 YP_408246.2 CDS SBO_1819 NC_007613.1 1797113 1797442 D highly acidic protein; the structure of the Haemophilus influenzae protein shows similarity to uracil DNA glycosylase inhibitor (Ugi); binds heat-unstable protein (HU-alpha) which is a histone-like protein; dsDNA-mimic protein 1797113..1797442 Shigella boydii Sb227 3780802 YP_408247.1 CDS oppF NC_007613.1 1797495 1798499 R similar to Salmonella ATP-binding protein of oligopeptide ABC transport system; Code: E; COG: COG4608; hypothetical protein complement(1797495..1798499) Shigella boydii Sb227 3780803 YP_408248.1 CDS oppD NC_007613.1 1798496 1799509 R similar to Salmonella ATP-binding protein of oligopeptide ABC transport system; Code: EP; COG: COG0444; oligopeptide ABC transporter ATP-binding protein complement(1798496..1799509) Shigella boydii Sb227 3780804 YP_408249.1 CDS oppC NC_007613.1 1799521 1800429 R similar to Salmonella oligopeptide transport permease protein; Code: EP; COG: COG1173; hypothetical protein complement(1799521..1800429) Shigella boydii Sb227 3780805 YP_408250.1 CDS oppB NC_007613.1 1800444 1801364 R Code: EP; COG: COG0601; oligopeptide transporter permease complement(1800444..1801364) Shigella boydii Sb227 3780806 YP_408251.1 CDS oppA NC_007613.1 1801450 1803081 R Code: E; COG: COG4166; oligopeptide transport periplasmic binding protein complement(1801450..1803081) Shigella boydii Sb227 3780807 YP_408252.1 CDS insB NC_007613.1 1803772 1804275 R Code: L; COG: COG1662; IS1 ORF2 complement(1803772..1804275) Shigella boydii Sb227 3780808 YP_408253.1 CDS SBO_1826 NC_007613.1 1804350 1804589 D IS1 encoded protein 1804350..1804589 Shigella boydii Sb227 3780809 YP_408254.1 CDS ychE NC_007613.1 1804596 1805243 R Code: U; COG: COG2095; hypothetical protein complement(1804596..1805243) Shigella boydii Sb227 3780810 YP_408255.1 CDS adhE NC_007613.1 1805721 1808396 D pyruvate-formate-lyase deactivase; Code: C; COG: COG1454; bifunctional acetaldehyde-CoA/alcohol dehydrogenase 1805721..1808396 Shigella boydii Sb227 3780811 YP_408256.1 CDS SBO_1829 NC_007613.1 1808644 1808874 D hypothetical protein 1808644..1808874 Shigella boydii Sb227 3780812 YP_408257.1 CDS SBO_1830 NC_007613.1 1808826 1809365 D hypothetical protein 1808826..1809365 Shigella boydii Sb227 3780813 YP_408258.1 CDS tdk NC_007613.1 1809699 1810316 R catalyzes the formation of thymidine 5'-phosphate from thymidine; thymidine kinase complement(1809699..1810316) Shigella boydii Sb227 3780814 YP_408259.1 CDS hns NC_007613.1 1810921 1811334 D DNA-binding protein HLP-II (HU, BH2, HD, NS); pleiotropic regulator; Code: R; COG: COG2916; global DNA-binding transcriptional dual regulator H-NS 1810921..1811334 Shigella boydii Sb227 3780815 YP_408260.1 CDS galU NC_007613.1 1811478 1812386 R together with GalF subunit composes the UTP--glucose-1-phosphate uridylyltransferase, an enzyme that catalyzes the formation of UDP-glucose from UTP and alpha-D-glucose 1-phosphate; regulates cellular levels of UDP-glucose; UTP--glucose-1-phosphate uridylyltransferase subunit GalU complement(1811478..1812386) Shigella boydii Sb227 3780816 YP_408261.1 CDS hnr NC_007613.1 1812588 1813601 R Code: T; COG: COG0784; response regulator of RpoS complement(1812588..1813601) Shigella boydii Sb227 3780817 YP_408262.1 CDS ychK NC_007613.1 1813693 1814637 R Code: R; COG: COG1752; hypothetical protein complement(1813693..1814637) Shigella boydii Sb227 3780818 YP_408263.1 CDS ychJ NC_007613.1 1814711 1815169 D Code: S; COG: COG3012; hypothetical protein 1814711..1815169 Shigella boydii Sb227 3780819 YP_408264.1 CDS purU NC_007613.1 1815219 1816061 D for purT-dependent FGAR synthesis; produces formate from formyl-tetrahydrofolate which is the major source of formate for PurT in de novo purine nucleotide biosynthesis; has a role in one-carbon metabolism; forms a homohexamer; activated by methionine and inhibited by glycine; formyltetrahydrofolate deformylase 1815219..1816061 Shigella boydii Sb227 3780820 YP_408265.1 CDS narI NC_007613.1 1816666 1817343 R Code: C; COG: COG2181; nitrate reductase 1 cytochrome bNR, subunit gamma complement(1816666..1817343) Shigella boydii Sb227 3780822 YP_408266.1 CDS narJ NC_007613.1 1817343 1818053 R Code: C; COG: COG2180; nitrate reductase 1 subunit delta complement(1817343..1818053) Shigella boydii Sb227 3780823 YP_408267.1 CDS narH NC_007613.1 1818050 1819588 R Code: C; COG: COG1140; nitrate reductase 1 subunit beta complement(1818050..1819588) Shigella boydii Sb227 3780824 YP_408268.1 CDS narG NC_007613.1 1819585 1823328 R Code: C; COG: COG5013; nitrate reductase 1 subunit alpha complement(1819585..1823328) Shigella boydii Sb227 3780825 YP_408269.1 CDS narK NC_007613.1 1823844 1825235 R Code: P; COG: COG2223; nitrite extrusion protein complement(1823844..1825235) Shigella boydii Sb227 3780826 YP_408270.1 CDS narX NC_007613.1 1825574 1827370 D nitrate/nitrate sensor, histidine protein kinase acts on NarL regulator; Code: T; COG: COG3850; nitrate/nitrite sensor protein NarX 1825574..1827370 Shigella boydii Sb227 3780827 YP_408271.1 CDS narL NC_007613.1 1827363 1828013 D response regulator for nar, frd, dms and tor genes; two-component response regulator NarL; phosphorylated by NarQ; activates transcription of nitrate and nitrite reductase genes and represses transcription of fumarate reductase; transcriptional regulator NarL 1827363..1828013 Shigella boydii Sb227 3780828 YP_408272.1 CDS ychP NC_007613.1 1828014 1829267 R hypothetical protein complement(1828014..1829267) Shigella boydii Sb227 3780829 YP_408273.1 CDS ychN NC_007613.1 1829592 1829945 D Code: P; COG: COG1553; hypothetical protein 1829592..1829945 Shigella boydii Sb227 3780830 YP_408274.1 CDS chaC NC_007613.1 1829989 1830705 R Code: P; COG: COG3703; cation transport regulator complement(1829989..1830705) Shigella boydii Sb227 3780831 YP_408275.1 CDS chaB NC_007613.1 1830842 1831072 R in Escherichia coli this protein ly regulates the sodium/proton (also pH-independent calcium/proton) antiporter chaA; has weak affinity for calcium and magnesium ions; cation transport regulator complement(1830842..1831072) Shigella boydii Sb227 3780832 YP_408276.1 CDS chaA NC_007613.1 1831342 1832442 D Code: P; COG: COG0387; calcium/sodium:proton antiporter 1831342..1832442 Shigella boydii Sb227 3780833 YP_408277.1 CDS SBO_1851 NC_007613.1 1833215 1833490 D hypothetical protein 1833215..1833490 Shigella boydii Sb227 3780834 YP_408278.1 CDS kdsA NC_007613.1 1833639 1834493 R catalyzes the formation of 2-dehydro-3-deoxy-D-octonate 8-phosphate from phosphoenolpyruvate and D-arabinose 5-phosphate in LPS biosynthesis; 2-dehydro-3-deoxyphosphooctonate aldolase complement(1833639..1834493) Shigella boydii Sb227 3780835 YP_408279.1 CDS ychA NC_007613.1 1834701 1835339 R Code: S; COG: COG2912; hypothetical protein complement(1834701..1835339) Shigella boydii Sb227 3780836 YP_408280.1 CDS SBO_1854 NC_007613.1 1835343 1835735 R Code: S; COG: COG3094; transcriptional regulator complement(1835343..1835735) Shigella boydii Sb227 3780837 YP_408281.1 CDS hemK NC_007613.1 1835732 1836565 R HemK; PrmC; transfers a methyl group from S-adenosylmethionine to amide nitrogen of specific glutamine residues in protein chain release factors PrfA and PrfB; N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase complement(1835732..1836565) Shigella boydii Sb227 3780838 YP_408282.1 CDS prfA NC_007613.1 1836565 1837647 R recognizes the termination signals UAG and UAA during protein translation a specificity which is dependent on amino acid residues residing in loops of the L-shaped tRNA-like molecule of RF1; this protein is similar to release factor 2; peptide chain release factor 1 complement(1836565..1837647) Shigella boydii Sb227 3780839 YP_408283.1 CDS hemA NC_007613.1 1837689 1838945 R enzyme in alternate path of synthesis of 5-aminolevulinate; catalyzes the formation of glutamate-1-semialdehyde from glutamyl-tRNA(Glu) and NADPH; the second step of the pathway is catalyzed by glutamate-1-semialdehyde aminomutase which results in the formation of 5-aminolevulinic acid; functions in porphyrin (tetrapyrroles) biosynthesis; the crystal structure showed a C-terminal dimerization domain that appears to be absent in Chlamydial proteins; glutamyl-tRNA reductase complement(1837689..1838945) Shigella boydii Sb227 3780840 YP_408284.1 CDS lolB NC_007613.1 1839159 1839782 D an enzyme in main pathway of synthesis of 5-aminolevulinate, possibly glutamyl-tRNA dehydrogenase; Incorporates lipoproteins in the outer membrane after they are released by the LolA protein; outer membrane lipoprotein LolB 1839159..1839782 Shigella boydii Sb227 3780841 YP_408285.1 CDS ipk NC_007613.1 1839782 1840633 D An essential enzyme in the nonmevalonate pathway of isopentenyl diphosphate and dimethylallyl diphosphate biosynthesis; 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase 1839782..1840633 Shigella boydii Sb227 3780842 YP_408286.1 CDS prsA NC_007613.1 1840784 1841731 D catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP; ribose-phosphate pyrophosphokinase 1840784..1841731 Shigella boydii Sb227 3780843 YP_408287.1 CDS ychM NC_007613.1 1841883 1843535 D role in sulfate transport across the inner membrane; member of the SulP family of sulfate transporters; seems to mediate transport via sulfate/proton symport; sulfate transporter YchM 1841883..1843535 Shigella boydii Sb227 3780844 YP_408288.1 CDS ychH NC_007613.1 1843590 1843868 R YchH; transcription activated by CRP (cyclic AMP receptor protein), a global transcription factor involved in regulation of metabolism in enteric bacteria; ychH presents a class II promoter to bind CRP; unknown function; hypothetical protein complement(1843590..1843868) Shigella boydii Sb227 3780845 YP_408289.1 CDS pth NC_007613.1 1844146 1844730 D Enables the recycling of peptidyl-tRNAs produced at termination of translation; peptidyl-tRNA hydrolase 1844146..1844730 Shigella boydii Sb227 3780846 YP_408290.1 CDS ychF NC_007613.1 1844847 1845938 D translation-associated GTPase; the crystal structure of the Haemophilus influenzae YchF protein showed similarity to the yeast structure (PDB: 1NI3); fluorescence spectroscopy revealed nucleic acid binding; the yeast protein YBR025c interacts with the translation elongation factor eEF1; GTP-dependent nucleic acid-binding protein EngD 1844847..1845938 Shigella boydii Sb227 3780847 YP_408291.1 CDS insB NC_007613.1 1846051 1846554 R Code: L; COG: COG1662; IS1 ORF2 complement(1846051..1846554) Shigella boydii Sb227 3780848 YP_408292.1 CDS SBO_1867 NC_007613.1 1850182 1850490 R IS600 ORF2 complement(1850182..1850490) Shigella boydii Sb227 3780850 YP_408293.1 CDS SBO_1868 NC_007613.1 1850484 1851323 R Code: L; COG: COG2801; IS911 ORF2 complement(1850484..1851323) Shigella boydii Sb227 3780851 YP_408294.1 CDS SBO_1869 NC_007613.1 1851863 1853791 R Positively regulates the dhaKLM operon from a sigma-70 promoter; DNA-binding transcriptional regulator DhaR complement(1851863..1853791) Shigella boydii Sb227 3780852 YP_408295.1 CDS SBO_1870 NC_007613.1 1853980 1855119 D with DhaL and DhaM forms dihydroxyacetone kinase, which is responsible for phosphorylating dihydroxyacetone; DhaK is the dihydroxyacetone binding subunit of the dihydroxyacetone kinase; dihydroxyacetone kinase subunit DhaK 1853980..1855119 Shigella boydii Sb227 3780853 YP_408296.1 CDS SBO_1871 NC_007613.1 1855091 1855723 D with DhaK and DhaM catalyzes the phosphorylation of dihydroxyacetone; dihydroxyacetone kinase subunit DhaL 1855091..1855723 Shigella boydii Sb227 3780854 YP_408297.1 CDS ycgC NC_007613.1 1855731 1857152 D phosphotransferaese subunit; phosphorylates dihydroxyacetone along with DhaK/DhaL; dihydroxyacetone kinase subunit DhaM 1855731..1857152 Shigella boydii Sb227 3780855 YP_408298.1 CDS SBO_1873 NC_007613.1 1857511 1857681 R IS1 encoded protein complement(1857511..1857681) Shigella boydii Sb227 3780856 YP_408299.1 CDS insB NC_007613.1 1857774 1858277 D Code: L; COG: COG1662; IS1 ORF2 1857774..1858277 Shigella boydii Sb227 3780857 YP_408300.1 CDS ycgY NC_007613.1 1859900 1860340 R hypothetical protein complement(1859900..1860340) Shigella boydii Sb227 3780859 YP_408301.1 CDS ymgE NC_007613.1 1860519 1860773 R Code: S; COG: COG2261; hypothetical protein complement(1860519..1860773) Shigella boydii Sb227 3780860 YP_408302.1 CDS ycgR NC_007613.1 1860974 1861708 D Code: M; COG: COG5581; hypothetical protein 1860974..1861708 Shigella boydii Sb227 3780861 YP_408303.1 CDS mltE NC_007613.1 1861710 1862435 R Code: M; COG: COG0741; murein transglycosylase E complement(1861710..1862435) Shigella boydii Sb227 3780863 YP_408304.1 CDS ldcA NC_007613.1 1862421 1863335 D catalyzes the release of D-alanine from L-alanyl-D-glutamyl-meso-diaminopimelyl-D-alanine; L,D-carboxypeptidase A 1862421..1863335 Shigella boydii Sb227 3780862 YP_408305.2 CDS SBO_1881 NC_007613.1 1863430 1865166 D the Vibrio parahaemolyticus gene VP2867 was found to be a potassium/proton antiporter; can rapidly extrude potassium against a potassium gradient at alkaline pH when cloned and expressed in Escherichia coli; potassium/proton antiporter 1863430..1865166 Shigella boydii Sb227 3780864 YP_408306.1 CDS dadA NC_007613.1 1866622 1867920 R catalyzes the oxidative deamination of D-amino acids; D-amino acid dehydrogenase small subunit complement(1866622..1867920) Shigella boydii Sb227 3780866 YP_408307.1 CDS ycgB NC_007613.1 1868250 1869782 D Code: S; COG: COG2719; SpoVR family protein 1868250..1869782 Shigella boydii Sb227 3780867 YP_408308.1 CDS fadR NC_007613.1 1869834 1870553 R negative regulator for fad regulon, and positive activator of fabA; Multifunctional regulator of fatty acid metabolism; fatty acid metabolism regulator complement(1869834..1870553) Shigella boydii Sb227 3780868 YP_408309.1 CDS nhaB NC_007613.1 1870774 1872315 D involved in regulation of intracellular pH under alkaline conditions; sodium/proton antiporter 1870774..1872315 Shigella boydii Sb227 3780869 YP_408310.1 CDS dsbB NC_007613.1 1872461 1872991 D reoxidizes DsbA protein following formation of disulfide bond in P-ring of flagella; disulfide oxidoreductase; integral membrane protein; required for perioplasmic disulfide bond formation; oxidizes DsbA protein; disulfide bond formation protein B 1872461..1872991 Shigella boydii Sb227 3780870 YP_408311.1 CDS umuD NC_007613.1 1874304 1874723 R SOS mutagenesis; error-prone repair; processed to UmuD'; forms complex with UmuC; binds with UmuC protein to form functional DNA pol V (UmuD'2UmuC); involved in translesion polymerization; DNA polymerase V subunit UmuD complement(1874304..1874723) Shigella boydii Sb227 3780872 YP_408312.1 CDS insB NC_007613.1 1875419 1875922 R Code: L; COG: COG1662; IS1 ORF2 complement(1875419..1875922) Shigella boydii Sb227 3780874 YP_408313.1 CDS SBO_1892 NC_007613.1 1875997 1876221 D IS1 encoded protein 1875997..1876221 Shigella boydii Sb227 3780875 YP_408314.1 CDS ycgJ NC_007613.1 1876201 1876569 R hypothetical protein complement(1876201..1876569) Shigella boydii Sb227 3780876 YP_408315.1 CDS minC NC_007613.1 1877095 1877790 D inhibits ftsZ ring formation; blocks the formation of polar Z-ring septums; septum formation inhibitor 1877095..1877790 Shigella boydii Sb227 3780877 YP_408316.1 CDS minD NC_007613.1 1877814 1878626 D a membrane ATPase, activates minC; ATPase; with MinC inhibits cell division by blocking formation of the polar Z ring septums; cell division inhibitor MinD 1877814..1878626 Shigella boydii Sb227 3780878 YP_408317.1 CDS minE NC_007613.1 1878630 1878896 D reverses MinC inhibition of ftsZ ring formation; works in conjunction with MinC and MinD to enable cell division at the midpoint of the long axis of the cell; cell division topological specificity factor MinE 1878630..1878896 Shigella boydii Sb227 3780879 YP_408318.1 CDS SBO_1897 NC_007613.1 1879975 1880259 D hypothetical protein 1879975..1880259 Shigella boydii Sb227 3780880 YP_408319.1 CDS SBO_1898 NC_007613.1 1880391 1880597 D hypothetical protein 1880391..1880597 Shigella boydii Sb227 3780881 YP_408320.1 CDS SBO_1899 NC_007613.1 1880654 1881025 R hypothetical protein complement(1880654..1881025) Shigella boydii Sb227 3780882 YP_408321.1 CDS SBO_1900 NC_007613.1 1881107 1882243 R Code: MU; COG: COG3468; hypothetical protein complement(1881107..1882243) Shigella boydii Sb227 3780883 YP_408322.1 CDS insB NC_007613.1 1882245 1882748 R Code: L; COG: COG1662; IS1 ORF2 complement(1882245..1882748) Shigella boydii Sb227 3780884 YP_408323.1 CDS SBO_1902 NC_007613.1 1882823 1883002 D IS1 encoded protein 1882823..1883002 Shigella boydii Sb227 3780885 YP_408324.1 CDS icdA NC_007613.1 1883287 1884537 R specific for NADP+; Converts isocitrate to alpha ketoglutarate; isocitrate dehydrogenase complement(1883287..1884537) Shigella boydii Sb227 3780886 YP_408325.1 CDS ymfC NC_007613.1 1884739 1885362 D catalyzes the formation of pseudouridine from uracil-2457 in 23S ribosomal RNA; 23S rRNA pseudouridine synthase E 1884739..1885362 Shigella boydii Sb227 3780887 YP_408326.1 CDS SBO_1905 NC_007613.1 1885372 1885833 D Code: LR; COG: COG0494; phosphohydrolase 1885372..1885833 Shigella boydii Sb227 3780888 YP_408327.2 CDS mnmA NC_007613.1 1885887 1886993 D catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs; tRNA-specific 2-thiouridylase MnmA 1885887..1886993 Shigella boydii Sb227 3780889 YP_408328.1 CDS ycfC NC_007613.1 1887029 1887670 D HflD; UPF0274; in Escherichia coli this protein is peripherally associated with the membrane and appears to act with lambda CII protein; in Haemophilus influenzae a knockout of the HI0638 gene affected paracytosis; hypothetical protein 1887029..1887670 Shigella boydii Sb227 3780890 YP_408329.1 CDS purB NC_007613.1 1887674 1889044 D Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide; adenylosuccinate lyase 1887674..1889044 Shigella boydii Sb227 3780891 YP_408330.1 CDS phoP NC_007613.1 1889212 1889883 D response regulator in two-component regulatory system with PhoQ; involved in magnesium starvation and stress; DNA-binding transcriptional regulator PhoP 1889212..1889883 Shigella boydii Sb227 3780892 YP_408331.1 CDS phoQ NC_007613.1 1889883 1891343 D Code: T; COG: COG0642; sensor protein PhoQ 1889883..1891343 Shigella boydii Sb227 3780893 YP_408332.1 CDS ycfD NC_007613.1 1891410 1892540 D Code: S; COG: COG2850; hypothetical protein 1891410..1892540 Shigella boydii Sb227 3780894 YP_408333.1 CDS pepT NC_007613.1 1892589 1893815 R catalyzes the release of the N-terminal amino acid from a tripeptide; peptidase T complement(1892589..1893815) Shigella boydii Sb227 3780895 YP_408334.1 CDS SBO_1913 NC_007613.1 1893847 1894116 R IS1 encoded protein complement(1893847..1894116) Shigella boydii Sb227 3780896 YP_408335.1 CDS insB NC_007613.1 1894191 1894694 D Code: L; COG: COG1662; IS1 ORF2 1894191..1894694 Shigella boydii Sb227 3780897 YP_408336.1 CDS potA NC_007613.1 1894842 1895978 D functions together with PotBCD (A2BCD) in ATP-dependent polyamine transport; PotA is the membrane-associated ATPase; putrescine/spermidine ABC transporter ATPase 1894842..1895978 Shigella boydii Sb227 3780898 YP_408337.1 CDS potB NC_007613.1 1895962 1896825 D can transport spermidine and putrescine but affinity is higher for spermidine; forms a complex of PotA2BCD; PotB is a membrane component; spermidine/putrescine ABC transporter membrane protein 1895962..1896825 Shigella boydii Sb227 3780899 YP_408338.1 CDS SBO_1917 NC_007613.1 1897690 1898040 D Code: L; COG: COG3436; protein encoded within IS 1897690..1898040 Shigella boydii Sb227 3780900 YP_408339.1 CDS SBO_1918 NC_007613.1 1898309 1899196 R Code: L; COG: COG2801; IS629 ORF2 complement(1898309..1899196) Shigella boydii Sb227 3780901 YP_408340.1 CDS SBO_1919 NC_007613.1 1899196 1899471 R Code: L; COG: COG2963; IS629 ORF1 complement(1899196..1899471) Shigella boydii Sb227 3780902 YP_408341.1 CDS SBO_1920 NC_007613.1 1899701 1900975 D Code: L; COG: COG3436; protein encoded within IS 1899701..1900975 Shigella boydii Sb227 3780903 YP_408342.1 CDS SBO_1921 NC_007613.1 1901423 1901755 R Code: M; COG: COG0810; membrane protein, energy transducer complement(1901423..1901755) Shigella boydii Sb227 3780904 YP_408343.1 CDS SBO_1922 NC_007613.1 1902342 1902740 R endopeptidase complement(1902342..1902740) Shigella boydii Sb227 3780905 YP_408344.1 CDS SBO_1923 NC_007613.1 1902883 1903098 R hypothetical protein complement(1902883..1903098) Shigella boydii Sb227 3780906 YP_408345.1 CDS SBO_1924 NC_007613.1 1903221 1903754 R Code: R; COG: COG3772; lysozyme complement(1903221..1903754) Shigella boydii Sb227 3780907 YP_408346.1 CDS SBO_1925 NC_007613.1 1903805 1904149 R hypothetical protein complement(1903805..1904149) Shigella boydii Sb227 3780908 YP_408347.1 CDS SBO_1926 NC_007613.1 1904446 1904691 R hypothetical protein complement(1904446..1904691) Shigella boydii Sb227 3780909 YP_408348.1 CDS SBO_1928 NC_007613.1 1905039 1905548 R hypothetical protein complement(1905039..1905548) Shigella boydii Sb227 3780911 YP_408349.1 CDS SBO_1927 NC_007613.1 1905515 1905790 D Code: L; COG: COG2963; IS629 ORF1 1905515..1905790 Shigella boydii Sb227 3780910 YP_408350.1 CDS SBO_1929 NC_007613.1 1905790 1906677 D Code: L; COG: COG2801; IS629 ORF2 1905790..1906677 Shigella boydii Sb227 3780912 YP_408351.1 CDS SBO_1930 NC_007613.1 1907058 1908137 R Code: L; COG: COG2801; hypothetical protein complement(1907058..1908137) Shigella boydii Sb227 3780913 YP_408352.1 CDS SBO_1934 NC_007613.1 1908917 1909501 R Code: L; COG: COG0863; DNA adenine methyltransferase encoded by prophage complement(1908917..1909501) Shigella boydii Sb227 3780917 YP_408353.1 CDS SBO_1935 NC_007613.1 1909661 1909948 R DNA adenine methyltransferase encoded by prophage complement(1909661..1909948) Shigella boydii Sb227 3780918 YP_408354.1 CDS insB NC_007613.1 1909950 1910345 R Code: L; COG: COG1662; IS1 ORF2 complement(1909950..1910345) Shigella boydii Sb227 3780919 YP_408355.1 CDS SBO_1937 NC_007613.1 1910546 1910950 D hypothetical protein 1910546..1910950 Shigella boydii Sb227 3780920 YP_408356.1 CDS SBO_1938 NC_007613.1 1910919 1911962 D Code: L; COG: COG0582; integrase 1910919..1911962 Shigella boydii Sb227 3780921 YP_408357.1 CDS potC NC_007613.1 1912204 1912998 D can transport spermidine and putrescine but affinity is higher for spermidine; forms a complex of PotA2BCD; PotC is a membrane component; spermidine/putrescine ABC transporter membrane protein 1912204..1912998 Shigella boydii Sb227 3780922 YP_408358.1 CDS potD NC_007613.1 1912995 1914041 D can transport spermidine and putrescine but affinity is higher for spermidine; forms a complex of PotA2BCD; PotD is a periplasmic component that binds the substrate; spermidine/putrescine ABC transporter substrate-binding protein 1912995..1914041 Shigella boydii Sb227 3780923 YP_408359.1 CDS cobB NC_007613.1 1914197 1915018 R Modulates the activities of several enzymes which are inactive in their acetylated form; NAD-dependent deacetylase complement(1914197..1915018) Shigella boydii Sb227 3780924 YP_408360.1 CDS ycfX NC_007613.1 1915034 1915945 R catalyzes the formation of N-acetyl-D-glucosamine-6-phosphate from N-acetyl-D-glucosamine; N-acetyl-D-glucosamine kinase complement(1915034..1915945) Shigella boydii Sb227 3780925 YP_408361.1 CDS ycfW NC_007613.1 1915974 1917218 R part of the ATP-dependent transport system LolCDE; responsible for the localization of lipoproteins to the periplasmic surface of the outer membrane; outer membrane-specific lipoprotein transporter subunit LolE complement(1915974..1917218) Shigella boydii Sb227 3780926 YP_408362.2 CDS lolD NC_007613.1 1917218 1917919 R outer membrane specific; part of transporter complex lolCDE involved in the translocation of mature outer membrane-directed lipoproteins, from the inner membrane to the periplasmic chaperone; lipoprotein transporter ATP-binding subunit complement(1917218..1917919) Shigella boydii Sb227 3780927 YP_408363.1 CDS ycfU NC_007613.1 1917912 1919111 R part of the ATP-dependent transport system LolCDE; responsible for the localization of lipoproteins to the periplasmic surface of the outer membrane; outer membrane-specific lipoprotein transporter subunit LolC complement(1917912..1919111) Shigella boydii Sb227 3780928 YP_408364.1 CDS ycfT NC_007613.1 1919373 1920446 D Code: S; COG: COG4763; hypothetical protein 1919373..1920446 Shigella boydii Sb227 3780929 YP_408365.1 CDS mfd NC_007613.1 1920574 1924020 D mutation frequency decline; Code: LK; COG: COG1197; transcription-repair coupling factor 1920574..1924020 Shigella boydii Sb227 3780930 YP_408366.1 CDS ycfS NC_007613.1 1924164 1925126 D Code: S; COG: COG1376; hypothetical protein 1924164..1925126 Shigella boydii Sb227 3780931 YP_408367.1 CDS ycfR NC_007613.1 1925209 1925466 R hypothetical protein complement(1925209..1925466) Shigella boydii Sb227 3780932 YP_408368.1 CDS ycfQ NC_007613.1 1925629 1926339 D Code: K; COG: COG1309; hypothetical protein 1925629..1926339 Shigella boydii Sb227 3780933 YP_408369.1 CDS ycfJ NC_007613.1 1926401 1926940 R Code: S; COG: COG3134; hypothetical protein complement(1926401..1926940) Shigella boydii Sb227 3780934 YP_408370.1 CDS ndh NC_007613.1 1927167 1928471 R Code: C; COG: COG1252; respiratory NADH dehydrogenase complement(1927167..1928471) Shigella boydii Sb227 3780935 YP_408371.2 CDS ycfP NC_007613.1 1928871 1929413 R Code: R; COG: COG3150; hypothetical protein complement(1928871..1929413) Shigella boydii Sb227 3780936 YP_408372.1 CDS ycfO NC_007613.1 1929436 1930461 R hydrolyzes the terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides; beta-hexosaminidase complement(1929436..1930461) Shigella boydii Sb227 3780937 YP_408373.1 CDS thiK NC_007613.1 1930472 1931296 R catalyzes the phosphorylation of thiamine to thiamine phosphate; thiamine kinase complement(1930472..1931296) Shigella boydii Sb227 3780938 YP_408374.1 CDS ycfM NC_007613.1 1931280 1931918 R Code: R; COG: COG3417; hypothetical protein complement(1931280..1931918) Shigella boydii Sb227 3780939 YP_408375.1 CDS ycfL NC_007613.1 1931932 1932309 R Code: R; COG: COG5633; hypothetical protein complement(1931932..1932309) Shigella boydii Sb227 3780940 YP_408376.1 CDS ycfF NC_007613.1 1932312 1932671 R Code: FGR; COG: COG0537; purine nucleoside phosphoramidase complement(1932312..1932671) Shigella boydii Sb227 3780941 YP_408377.1 CDS insB NC_007613.1 1933195 1933698 R Code: L; COG: COG1662; IS1 ORF2 complement(1933195..1933698) Shigella boydii Sb227 3780942 YP_408378.1 CDS SBO_1960 NC_007613.1 1933791 1933967 D IS1 encoded protein 1933791..1933967 Shigella boydii Sb227 3780943 YP_408379.1 CDS fhuE NC_007613.1 1933934 1935970 D Code: P; COG: COG4773; ferric-rhodotorulic acid outer membrane transporter 1933934..1935970 Shigella boydii Sb227 3780944 YP_408380.1 CDS ptsG NC_007613.1 1936030 1937463 R phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system glucose-specific transporter subunit IIBC complement(1936030..1937463) Shigella boydii Sb227 3780945 YP_408381.1 CDS ycfH NC_007613.1 1937759 1938556 R Code: L; COG: COG0084; metallodependent hydrolase complement(1937759..1938556) Shigella boydii Sb227 3780946 YP_408382.1 CDS holB NC_007613.1 1938567 1939571 R catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; the delta' subunit seems to interact with the gamma subunit to transfer the beta subunit on the DNA; DNA polymerase III subunit delta' complement(1938567..1939571) Shigella boydii Sb227 3780947 YP_408383.1 CDS tmk NC_007613.1 1939568 1940209 R catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to thymidine monophosphate (dTMP) to form thymidine diphosphate (dTDP); thymidylate kinase complement(1939568..1940209) Shigella boydii Sb227 3780948 YP_408384.1 CDS yceG NC_007613.1 1940199 1941221 R Code: R; COG: COG1559; hypothetical protein complement(1940199..1941221) Shigella boydii Sb227 3780949 YP_408385.1 CDS pabC NC_007613.1 1941224 1942033 R catalyzes the formation of 4-aminobenzoate and pyruvate from 4-amino-4-deoxychorismate; 4-amino-4-deoxychorismate lyase complement(1941224..1942033) Shigella boydii Sb227 3780950 YP_408386.1 CDS fabF NC_007613.1 1942153 1943394 R FabF; beta-ketoacyl-ACP synthase II, KASII; catalyzes a condensation reaction in fatty acid biosynthesis: addition of an acyl acceptor of two carbons from malonyl-ACP; required for the elongation of short-chain unsaturated acyl-ACP; 3-oxoacyl-(acyl carrier protein) synthase II complement(1942153..1943394) Shigella boydii Sb227 3780951 YP_408387.1 CDS acpP NC_007613.1 1943482 1943718 R carries the fatty acid chain in fatty acid biosynthesis; acyl carrier protein complement(1943482..1943718) Shigella boydii Sb227 3780952 YP_408388.1 CDS fabG NC_007613.1 1943929 1944663 R catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-ACP reductase complement(1943929..1944663) Shigella boydii Sb227 3780953 YP_408389.1 CDS fabD NC_007613.1 1944676 1945605 R Code: I; COG: COG0331; malonyl-CoA-[acyl-carrier-protein] transacylase complement(1944676..1945605) Shigella boydii Sb227 3780954 YP_408390.1 CDS fabH NC_007613.1 1945621 1946574 R acetylCoA ACP transacylase; FabH; beta-ketoacyl-acyl carrier protein synthase III; catalyzes the condensation of acetyl-CoA with malonyl-ACP to initiate cycles of fatty acid elongation; differs from 3-oxoacyl-(acyl carrier protein) synthase I and II in that it utilizes CoA thioesters as primers rather than acyl-ACPs; 3-oxoacyl-ACP synthase complement(1945621..1946574) Shigella boydii Sb227 3780955 YP_408391.2 CDS plsX NC_007613.1 1946642 1947712 R involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY; glycerol-3-phosphate acyltransferase PlsX complement(1946642..1947712) Shigella boydii Sb227 3780956 YP_408392.1 CDS rpmF NC_007613.1 1947793 1947966 R some L32 proteins have zinc finger motifs consisting of CXXC while others do not; 50S ribosomal protein L32 complement(1947793..1947966) Shigella boydii Sb227 3780957 YP_408393.1 CDS yceD NC_007613.1 1948018 1948539 R Code: R; COG: COG1399; hypothetical protein complement(1948018..1948539) Shigella boydii Sb227 3780958 YP_408394.2 CDS yceF NC_007613.1 1948738 1949322 D Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell; Maf-like protein 1948738..1949322 Shigella boydii Sb227 3780959 YP_408395.1 CDS yceC NC_007613.1 1949434 1950393 R catalyzes the transformation of uracil to pseudouracil at nucleotides U955, U2504, and U2580 in 23S rRNA; 23S rRNA pseudouridylate synthase C complement(1949434..1950393) Shigella boydii Sb227 3780960 YP_408396.1 CDS SBO_1978 NC_007613.1 1950927 1951697 D Code: L; COG: COG3547; transposase 1950927..1951697 Shigella boydii Sb227 3780961 YP_408397.1 CDS SBO_1979 NC_007613.1 1951800 1952327 R hypothetical protein complement(1951800..1952327) Shigella boydii Sb227 3780962 YP_408398.1 CDS rne NC_007613.1 1952408 1955593 D membrane attachment, mRNA turnover, maturation 5S RNA; bifunctional ribonuclease E/endoribonuclease/RNA-binding protein/RNA degradosome binding protein; forms part of the membrane-associated degradosome complex along with PNPase, RhlB, and enolase; ribonuclease E 1952408..1955593 Shigella boydii Sb227 3780963 YP_408399.1 CDS flgL NC_007613.1 1955790 1956743 R flagellar biosynthesis; with FlgK acts as a hook filament junction protein to join the flagellar filament to the hook; Yersinia, Vibrio parahaemolyticus, Bradyrhizobium and other organisms have 2 copies of this and other flagellar genes; flagellar hook-associated protein FlgL complement(1955790..1956743) Shigella boydii Sb227 3780964 YP_408400.1 CDS flgK NC_007613.1 1956755 1958398 R flagellar biosynthesis; with FlgL acts as a hook filament junction protein to join the flagellar filament to the hook; flagellar hook-associated protein FlgK complement(1956755..1958398) Shigella boydii Sb227 3780965 YP_408401.1 CDS flgI NC_007613.1 1959405 1960502 R similar to Salmonella P-ring of flagella basal body; part of the basal body which consists of four rings L, P, S, and M mounted on a central rod; Vibrio parahaemolyticus, Yersinia, Bradyrhizobium and other bacteria have two copies of this and other flagellar genes; the V. parahaemolyticus protein is associated with the polar flagella and the Bradyrhizobium protein is associated with the thick flagellum; flagellar basal body P-ring protein complement(1959405..1960502) Shigella boydii Sb227 3780967 YP_408402.1 CDS flgH NC_007613.1 1960514 1961212 R flagellar biosynthesis; part of the flagellar basal body which consists of four rings L,P, S and M mounted on a central rod; flagellar basal body L-ring protein complement(1960514..1961212) Shigella boydii Sb227 3780968 YP_408403.1 CDS flgG NC_007613.1 1961265 1962047 R flagellar biosynthesis; makes up the distal portion of the flagellar basal body rod; flagellar basal body rod protein FlgG complement(1961265..1962047) Shigella boydii Sb227 3780969 YP_408404.1 CDS flgF NC_007613.1 1962185 1962940 R flagellar biosynthesis; FlgF, with FlgB and C, makes up the proximal portion of the flagellar basal body rod; flagellar basal body rod protein FlgF complement(1962185..1962940) Shigella boydii Sb227 3780970 YP_408405.1 CDS flgE NC_007613.1 1962960 1964168 R flagellar biosynthesis; the hook connects flagellar basal body to the flagellar filament; flagellar hook protein FlgE complement(1962960..1964168) Shigella boydii Sb227 3780971 YP_408406.1 CDS flgD NC_007613.1 1964193 1964888 R flagellar biosynthesis; acts as a scaffold for the assembly of hook proteins onto the flagellar basal body rod; Yersinia, Vibrio parahaemolyticus, Bradyrhizobium and other organisms have 2 copies of some flagellar genes; in V. parahaemolyticus one set used for lateral flagella production and the other is used for the polar flagella production; flagellar basal body rod modification protein complement(1964193..1964888) Shigella boydii Sb227 3780972 YP_408407.1 CDS flgC NC_007613.1 1964900 1965304 R flagellar biosynthesis; with FlgF and B makes up the proximal portion of the flagellar basal body rod; flagellar basal body rod protein FlgC complement(1964900..1965304) Shigella boydii Sb227 3780973 YP_408408.1 CDS flgB NC_007613.1 1965308 1965637 R flagellar biosynthesis; Code: N; COG: COG1815; cell-proximal portion of basal-body rod complement(1965308..1965637) Shigella boydii Sb227 3780974 YP_408409.1 CDS flgA NC_007613.1 1965793 1966452 D flagellar biosynthesis; required for the assembly of the flagellar basal body P-ring; flagellar basal body P-ring biosynthesis protein FlgA 1965793..1966452 Shigella boydii Sb227 3780975 YP_408410.1 CDS flgM NC_007613.1 1966528 1966857 D anti-sigma factor; also known as RflB protein; regulates the flagellar specific sigma28 transcription factor; anti-sigma-28 factor FlgM 1966528..1966857 Shigella boydii Sb227 3780976 YP_408411.1 CDS flgN NC_007613.1 1966862 1967278 D Code: NUO; COG: COG3418; protein of flagellar biosynthesis 1966862..1967278 Shigella boydii Sb227 3780977 YP_408412.1 CDS mviN NC_007613.1 1967318 1968853 R Code: R; COG: COG0728; virulence factor complement(1967318..1968853) Shigella boydii Sb227 3780978 YP_408413.1 CDS mviM NC_007613.1 1969020 1969886 R Code: R; COG: COG0673; virulence factor complement(1969020..1969886) Shigella boydii Sb227 3780979 YP_408414.1 CDS yceH NC_007613.1 1969888 1970535 R Code: S; COG: COG3132; hypothetical protein complement(1969888..1970535) Shigella boydii Sb227 3780980 YP_408415.1 CDS rimJ NC_007613.1 1970546 1971130 R acetylation of N-terminal alanine of 30S ribosomal subunit protein S5; Code: J; COG: COG1670; ribosomal-protein-S5-alanine N-acetyltransferase complement(1970546..1971130) Shigella boydii Sb227 3780981 YP_408416.2 CDS yceL NC_007613.1 1971366 1972568 D Confers resistance to norfloxacin and enoxacin; multidrug resistance protein MdtH 1971366..1972568 Shigella boydii Sb227 3780982 YP_408417.1 CDS grxB NC_007613.1 1972632 1973279 D cofactor involved in the reduction of disulfides; glutaredoxin 1972632..1973279 Shigella boydii Sb227 3780983 YP_408418.1 CDS yceB NC_007613.1 1973413 1973973 D hypothetical protein 1973413..1973973 Shigella boydii Sb227 3780984 YP_408419.1 CDS pyrC NC_007613.1 1974079 1975125 D catalyzes the formation of N-carbamoyl-L-aspartate from (S)-dihydroorotate in pyrimidine biosynthesis; dihydroorotase 1974079..1975125 Shigella boydii Sb227 3780985 YP_408420.1 CDS dinI NC_007613.1 1975199 1975444 D DNA damage-inducible protein I 1975199..1975444 Shigella boydii Sb227 3780986 YP_408421.1 CDS solA NC_007613.1 1976103 1977221 D catalyzes the demethylation of N-methyl-L-tryptophan forming L-tryptophan and formaldehyde; FAD-binding; can also catalyze the demethylation of other N-methyl amino acids; N-methyltryptophan oxidase 1976103..1977221 Shigella boydii Sb227 3780988 YP_408422.1 CDS yceO NC_007613.1 1977242 1977382 D hypothetical protein 1977242..1977382 Shigella boydii Sb227 3780989 YP_408423.1 CDS SBO_2007 NC_007613.1 1977643 1978209 D Code: C; COG: COG3038; cytochrome 1977643..1978209 Shigella boydii Sb227 3780990 YP_408424.1 CDS yceI NC_007613.1 1978213 1978788 D Code: S; COG: COG2353; hypothetical protein 1978213..1978788 Shigella boydii Sb227 3780991 YP_408425.1 CDS yceA NC_007613.1 1978830 1979420 R Code: R; COG: COG1054; hypothetical protein complement(1978830..1979420) Shigella boydii Sb227 3780992 YP_408426.1 CDS SBO_2010 NC_007613.1 1979821 1980660 D Code: L; COG: COG2801; IS911 ORF2 1979821..1980660 Shigella boydii Sb227 3780993 YP_408427.1 CDS htrB NC_007613.1 1981357 1982277 D Acylates the intermediate (KDO)2-lipid IVA to form (KDO)2-(lauroyl)-lipid IVA; lipid A biosynthesis lauroyl acyltransferase 1981357..1982277 Shigella boydii Sb227 3780994 YP_408428.1 CDS SBO_2013 NC_007613.1 1983628 1983726 D hypothetical protein 1983628..1983726 Shigella boydii Sb227 3780996 YP_408429.1 CDS msyB NC_007613.1 1983753 1984130 D acidic protein suppresses mutants lacking function of protein export; hypothetical protein 1983753..1984130 Shigella boydii Sb227 3780997 YP_408430.1 CDS yceK NC_007613.1 1984131 1984358 R Code: R; COG: COG5645; hypothetical protein complement(1984131..1984358) Shigella boydii Sb227 3780998 YP_408431.1 CDS SBO_2016 NC_007613.1 1984411 1985757 R Code: L; COG: COG3385; IS4 orf complement(1984411..1985757) Shigella boydii Sb227 3780999 YP_408432.1 CDS mdoG NC_007613.1 1988505 1990040 R involved in the biosynthesis of osmoregulated periplasmic glucans; required for the assembly of the polyglucose structure of glucan; glucan biosynthesis protein G complement(1988505..1990040) Shigella boydii Sb227 3781001 YP_408433.1 CDS mdoC NC_007613.1 1990434 1991591 D required for the transfer of succinyl residues to the glucan backbone; glucans biosynthesis protein 1990434..1991591 Shigella boydii Sb227 3781002 YP_408434.1 CDS ymdC NC_007613.1 1991599 1993080 R Code: I; COG: COG1502; synthase complement(1991599..1993080) Shigella boydii Sb227 3781003 YP_408435.1 CDS SBO_2021 NC_007613.1 1993022 1993555 R Code: R; COG: COG2110; hypothetical protein complement(1993022..1993555) Shigella boydii Sb227 3781004 YP_408436.1 CDS SBO_2022 NC_007613.1 1993651 1993962 R hypothetical protein complement(1993651..1993962) Shigella boydii Sb227 3781005 YP_408437.1 CDS SBO_2023 NC_007613.1 1994328 1995215 R Code: L; COG: COG2801; IS629 ORF2 complement(1994328..1995215) Shigella boydii Sb227 3781006 YP_408438.1 CDS SBO_2024 NC_007613.1 1995215 1995490 R Code: L; COG: COG2963; IS629 ORF1 complement(1995215..1995490) Shigella boydii Sb227 3781007 YP_408439.1 CDS SBO_2025 NC_007613.1 1995623 1995982 D IS600 ORF2 1995623..1995982 Shigella boydii Sb227 3781008 YP_408440.1 CDS csgA NC_007613.1 1996140 1996595 R curlin major subunit, coiled surface structures; cryptic; cryptic curlin major subunit complement(1996140..1996595) Shigella boydii Sb227 3781009 YP_408441.1 CDS csgD NC_007613.1 1997606 1998256 D activates the csgBA and csgDEFG operons involved in biofilm formation; DNA-binding transcriptional regulator CsgD 1997606..1998256 Shigella boydii Sb227 3781011 YP_408442.1 CDS SBO_2029 NC_007613.1 1998320 1998556 R IS1 encoded protein complement(1998320..1998556) Shigella boydii Sb227 3781012 YP_408443.1 CDS insB NC_007613.1 1998631 1999134 D Code: L; COG: COG1662; IS1 ORF2 1998631..1999134 Shigella boydii Sb227 3781013 YP_408444.1 CDS ycdZ NC_007613.1 1999898 2000437 R hypothetical protein complement(1999898..2000437) Shigella boydii Sb227 3781015 YP_408445.1 CDS ycdY NC_007613.1 2000491 2001045 R Code: R; COG: COG3381; oxidoreductase component complement(2000491..2001045) Shigella boydii Sb227 3781016 YP_408446.1 CDS ycdX NC_007613.1 2001069 2001806 R Code: ER; COG: COG1387; hydrolase complement(2001069..2001806) Shigella boydii Sb227 3781017 YP_408447.1 CDS ycdW NC_007613.1 2001861 2002838 R Code: HE; COG: COG0111; dehydrogenase complement(2001861..2002838) Shigella boydii Sb227 3781018 YP_408448.1 CDS SBO_2037 NC_007613.1 2003392 2004078 R hypothetical protein complement(2003392..2004078) Shigella boydii Sb227 3781020 YP_408449.1 CDS phoH NC_007613.1 2004659 2005723 R may be helicase; induced by P starvation; Code: T; COG: COG1702; hypothetical protein complement(2004659..2005723) Shigella boydii Sb227 3781021 YP_408450.1 CDS ycdB NC_007613.1 2006069 2007340 R Code: P; COG: COG2837; hypothetical protein complement(2006069..2007340) Shigella boydii Sb227 3781022 YP_408451.1 CDS ycdO NC_007613.1 2007346 2008473 R Code: P; COG: COG2822; hypothetical protein complement(2007346..2008473) Shigella boydii Sb227 3781023 YP_408452.1 CDS putP NC_007613.1 2010028 2011536 R Code: ER; COG: COG0591; major sodium/proline symporter complement(2010028..2011536) Shigella boydii Sb227 3781025 YP_408453.1 CDS putA NC_007613.1 2011959 2015921 D P5C dehydrogenase; proline utilization protein A; multifunctional protein that functions in proline catabolism in the first two enzymatic steps resulting in the conversion of proline to glutamate; in Escherichai coli this protein also self-regulates transcription via a DNA-binding domain at the N-terminus; forms dimers and is a peripherally membrane-associated protein; multifunctional functional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase 2011959..2015921 Shigella boydii Sb227 3781026 YP_408454.1 CDS ycdC NC_007613.1 2015961 2016599 R Code: K; COG: COG1309; tet operon regulator complement(2015961..2016599) Shigella boydii Sb227 3781027 YP_408455.1 CDS SBO_2045 NC_007613.1 2016830 2017117 D hypothetical protein 2016830..2017117 Shigella boydii Sb227 3781028 YP_408456.1 CDS SBO_2047 NC_007613.1 2018392 2019609 D Code: MR; COG: COG4948; racemase 2018392..2019609 Shigella boydii Sb227 3781030 YP_408457.1 CDS SBO_2048 NC_007613.1 2019627 2020955 D Code: GEPR; COG: COG0477; transporter 2019627..2020955 Shigella boydii Sb227 3781031 YP_408458.1 CDS SBO_2049 NC_007613.1 2020973 2021776 D Code: G; COG: COG3836; aldolase 2020973..2021776 Shigella boydii Sb227 3781032 YP_408459.1 CDS yfaD NC_007613.1 2021817 2022719 R Code: S; COG: COG5464; hypothetical protein complement(2021817..2022719) Shigella boydii Sb227 3781033 YP_408460.1 CDS glpC NC_007613.1 2022912 2024102 R anaerobic; with GlpAB catalyzes the conversion of glycerol-3-phosphate to dihydroxyacetone phosphate; sn-glycerol-3-phosphate dehydrogenase subunit C complement(2022912..2024102) Shigella boydii Sb227 3781034 YP_408461.1 CDS glpB NC_007613.1 2024099 2025358 R sn-glycerol-3-phosphate dehydrogenase (anaerobic); catalyzes the formation of dihydroxyacetone from glycerol 3-phosphate; part of GlpABC complex; presumably this subunit is responsible for membrane interactions and contains iron-sulfur clusters; anaerobic glycerol-3-phosphate dehydrogenase subunit B complement(2024099..2025358) Shigella boydii Sb227 3781035 YP_408462.1 CDS glpA NC_007613.1 2025348 2026976 R anaerobic, catalyzes the conversion of glycerol 3-phosphate to dihydroxyacetone using fumarate or nitrate as electron acceptor; sn-glycerol-3-phosphate dehydrogenase subunit A complement(2025348..2026976) Shigella boydii Sb227 3781036 YP_408463.1 CDS glpT NC_007613.1 2027249 2028607 D catalyzes the uptake of glycerol-3-phosphate into the cell with the simultaneous export of inorganic phosphate from the cell; sn-glycerol-3-phosphate transporter 2027249..2028607 Shigella boydii Sb227 3781037 YP_408464.1 CDS glpQ NC_007613.1 2028612 2029688 D hydrolyzes deacylated phospholipids to glycerol 3-phosphate and the corresponding alcohols; periplasmic; glycerophosphodiester phosphodiesterase 2028612..2029688 Shigella boydii Sb227 3781038 YP_408465.1 CDS yfaH NC_007613.1 2029730 2029936 R Code: K; COG: COG0583; hypothetical protein complement(2029730..2029936) Shigella boydii Sb227 3781039 YP_408466.1 CDS yfaE NC_007613.1 2030855 2031109 R plays a role in maintenance and possibly the biosynthesis of diferric-tyrosyl radical cofactor, essential for nucleotide reduction catalyzed by ribonucleotide reductases; 2Fe-2S ferredoxin complement(2030855..2031109) Shigella boydii Sb227 3781041 YP_408467.1 CDS nrdB NC_007613.1 2031109 2032239 R B2 or R2 protein; type 1a enzyme; catalyzes the rate-limiting step in dNTP synthesis; converts nucleotides to deoxynucleotides; forms a homodimer and then a multimeric complex with NrdA; ribonucleotide-diphosphate reductase subunit beta complement(2031109..2032239) Shigella boydii Sb227 3781042 YP_408468.1 CDS nrdA NC_007613.1 2032386 2034671 R Catalyzes the rate-limiting step in dNTP synthesis; ribonucleotide-diphosphate reductase subunit alpha complement(2032386..2034671) Shigella boydii Sb227 3781043 YP_408469.1 CDS SBO_2061 NC_007613.1 2035374 2035547 R IS1 encoded protein complement(2035374..2035547) Shigella boydii Sb227 3781044 YP_408470.1 CDS insB NC_007613.1 2035640 2036143 D Code: L; COG: COG1662; IS1 ORF2 2035640..2036143 Shigella boydii Sb227 3781045 YP_408471.1 CDS ubiG NC_007613.1 2039213 2039935 R Involved in ubiquinone biosynthesis; 3-demethylubiquinone-9 3-methyltransferase complement(2039213..2039935) Shigella boydii Sb227 3781047 YP_408472.1 CDS gyrA NC_007613.1 2040082 2042709 D type II topoisomerase; negatively supercoils closed circular double-stranded DNA; DNA gyrase subunit A 2040082..2042709 Shigella boydii Sb227 3781048 YP_408473.1 CDS SBO_2066 NC_007613.1 2042810 2043253 D hypothetical protein 2042810..2043253 Shigella boydii Sb227 3781049 YP_408474.1 CDS SBO_2067 NC_007613.1 2043305 2043607 D Code: L; COG: COG2963; IS600 ORF1 2043305..2043607 Shigella boydii Sb227 3781050 YP_408475.1 CDS SBO_2068 NC_007613.1 2043632 2044471 R Code: L; COG: COG2801; IS911 ORF2 complement(2043632..2044471) Shigella boydii Sb227 3781051 YP_408476.1 CDS SBO_2069 NC_007613.1 2044657 2045544 R Code: L; COG: COG2801; IS629 ORF2 complement(2044657..2045544) Shigella boydii Sb227 3781052 YP_408477.1 CDS SBO_2070 NC_007613.1 2045544 2045819 R Code: L; COG: COG2963; IS629 ORF1 complement(2045544..2045819) Shigella boydii Sb227 3781053 YP_408478.1 CDS SBO_2071 NC_007613.1 2045896 2046150 R Code: L; COG: COG2963; IS911 ORF1 complement(2045896..2046150) Shigella boydii Sb227 3781054 YP_408479.1 CDS insB NC_007613.1 2046453 2046956 R Code: L; COG: COG1662; IS1 ORF2 complement(2046453..2046956) Shigella boydii Sb227 3781055 YP_408480.1 CDS SBO_2073 NC_007613.1 2047031 2047246 D IS1 encoded protein 2047031..2047246 Shigella boydii Sb227 3781056 YP_408481.1 CDS SBO_2074 NC_007613.1 2047755 2048105 D Code: L; COG: COG3436; protein encoded within IS 2047755..2048105 Shigella boydii Sb227 3781057 YP_408482.1 CDS SBO_2075 NC_007613.1 2048325 2048663 D protein encoded within IS 2048325..2048663 Shigella boydii Sb227 3781058 YP_408483.1 CDS SBO_2076 NC_007613.1 2048733 2049728 D Code: L; COG: COG3436; protein encoded within IS 2048733..2049728 Shigella boydii Sb227 3781059 YP_408484.1 CDS SBO_2077 NC_007613.1 2049811 2050182 D tail fiber assembly protein 2049811..2050182 Shigella boydii Sb227 3781060 YP_408485.1 CDS SBO_2078 NC_007613.1 2050359 2051210 R Code: L; COG: COG2801; IS600 ORF2 complement(2050359..2051210) Shigella boydii Sb227 3781061 YP_408486.2 CDS SBO_2079 NC_007613.1 2051195 2052100 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(2051195..2052100) Shigella boydii Sb227 3781062 YP_408487.1 CDS SBO_2080 NC_007613.1 2052058 2052423 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(2052058..2052423) Shigella boydii Sb227 3781063 YP_408488.1 CDS SBO_2081 NC_007613.1 2052567 2052869 R Code: L; COG: COG2963; IS600 ORF1 complement(2052567..2052869) Shigella boydii Sb227 3781064 YP_408489.1 CDS SBO_2082 NC_007613.1 2052934 2054178 D phage tail fiber protein 2052934..2054178 Shigella boydii Sb227 3781065 YP_408490.1 CDS SBO_2083 NC_007613.1 2054129 2054752 D prophage tail protein 2054129..2054752 Shigella boydii Sb227 3781066 YP_408491.1 CDS ipaH_6 NC_007613.1 2054932 2056695 R Code: S; COG: COG4886; invasion plasmid antigen complement(2054932..2056695) Shigella boydii Sb227 3781067 YP_408492.1 CDS SBO_2086 NC_007613.1 2061802 2063451 D Code: S; COG: COG5445; hypothetical protein 2061802..2063451 Shigella boydii Sb227 3781069 YP_408493.1 CDS SBO_2087 NC_007613.1 2063456 2064178 D Code: S; COG: COG4676; hypothetical protein 2063456..2064178 Shigella boydii Sb227 3781070 YP_408494.1 CDS SBO_2088 NC_007613.1 2064086 2064925 R Code: L; COG: COG2801; IS911 ORF2 complement(2064086..2064925) Shigella boydii Sb227 3781071 YP_408495.2 CDS rcsC NC_007613.1 2065727 2068576 D probable histidine kinase acting on RcsB; Code: T; COG: COG0642; hybrid sensory kinase in two-component regulatory system with RcsB and YojN 2065727..2068576 Shigella boydii Sb227 3781072 YP_408496.1 CDS rcsB NC_007613.1 2068776 2069426 R sensor, RcsC; two-component response regulator RscB regulates the genes involved in capsule biosynthesis and cell division; probably phosphorylated by RcsC or RcsF; transcriptional regulator RcsB complement(2068776..2069426) Shigella boydii Sb227 3781073 YP_408497.1 CDS yojN NC_007613.1 2069443 2072115 R Code: T; COG: COG0642; phosphotransfer intermediate protein in two-component regulatory system with RcsBC complement(2069443..2072115) Shigella boydii Sb227 3781074 YP_408498.1 CDS ompC NC_007613.1 2072853 2073974 D allows for ions and hydrophilic solutes to cross the outer membrane; outer membrane porin protein C 2072853..2073974 Shigella boydii Sb227 3781075 YP_408499.1 CDS yojL NC_007613.1 2074086 2075141 D catalyzes the conversion of aminoimidazole ribotide to the 4-amino-5-hydroxymethyl-2-methyl pyrimidine moiety of thiamine; involved in the maintenance and/or assembly of sulfur clusters; periplasmic lipoporotein anchored to the inner membrane; part of the thiamine pyrophosphate biosynthesis pathway; thiamine biosynthesis lipoprotein ApbE 2074086..2075141 Shigella boydii Sb227 3781076 YP_408500.1 CDS ada NC_007613.1 2075215 2076279 D Code: F; COG: COG2169; O6-methylguanine-DNA methyltransferase; transcription activator/repressor 2075215..2076279 Shigella boydii Sb227 3781077 YP_408501.1 CDS alkB NC_007613.1 2076279 2076929 D DNA repair system specific for alkylated DNA; Code: L; COG: COG3145; AlkB 2076279..2076929 Shigella boydii Sb227 3781078 YP_408502.1 CDS yojI NC_007613.1 2077005 2078648 D efflux pump for the antibacterial peptide microcin J25; multidrug transporter membrane protein/ATP-binding component 2077005..2078648 Shigella boydii Sb227 3781079 YP_408503.1 CDS yojH NC_007613.1 2078867 2080513 D malate dehydrogenase; catalyzes the oxidation of malate to oxaloacetate; malate:quinone oxidoreductase 2078867..2080513 Shigella boydii Sb227 3781080 YP_408504.1 CDS eco NC_007613.1 2080663 2081151 R a serine protease inhibitor; serine protease inhibitor, inhibits trypsin and other proteases; ecotin complement(2080663..2081151) Shigella boydii Sb227 3781081 YP_408505.1 CDS napF NC_007613.1 2081559 2082053 D electron transfer; Predicted role in electron transfer to the periplasmic nitrate reductase protein NapA; ferredoxin-type protein 2081559..2082053 Shigella boydii Sb227 3781082 YP_408506.1 CDS napD NC_007613.1 2082043 2082306 D Code: P; COG: COG3062; assembly protein for periplasmic nitrate reductase 2082043..2082306 Shigella boydii Sb227 3781083 YP_408507.1 CDS napA NC_007613.1 2082303 2084789 D periplasmic; catalytic subunit; with NapBC catalyzes the reduction of nitrate to nitrite; NapAB receives electrons from NapC; nitrate reductase catalytic subunit 2082303..2084789 Shigella boydii Sb227 3781084 YP_408508.1 CDS napG NC_007613.1 2084796 2085491 D electron transfer; part of NapHG quinol dehydrogenase; couples electron transfer from ubiquinone-ubiquinol couple via NapC/B to NapA; secreted by twin arginine translocation pathway; quinol dehydrogenase periplasmic component 2084796..2085491 Shigella boydii Sb227 3781085 YP_408509.1 CDS napH NC_007613.1 2085478 2086341 D electron transfer; part of NapHG quinol dehydrogenase; couples electron transfer from ubiquinone-ubiquinol couple via NapC/B to NapA; quinol dehydrogenase membrane component 2085478..2086341 Shigella boydii Sb227 3781086 YP_408510.2 CDS napB NC_007613.1 2086338 2086787 D small subunit of periplasmic nitrate reductase; receives electrons from the membrane-bound NapC and passes them to NapA; citrate reductase cytochrome c-type subunit 2086338..2086787 Shigella boydii Sb227 3781087 YP_408511.1 CDS napC NC_007613.1 2086797 2087399 D with NapABDFGH functions as a nitrate reductase; NapC functions as an electron shuttle between NapAB and NapGH or quinone; cytochrome c-type protein NapC 2086797..2087399 Shigella boydii Sb227 3781088 YP_408512.1 CDS ccmA NC_007613.1 2087418 2088035 D ATP-binding protein; required for proper cytochrome c maturation; cytochrome c biogenesis protein CcmA 2087418..2088035 Shigella boydii Sb227 3781089 YP_408513.1 CDS ccmB NC_007613.1 2088032 2088694 D cytochrome c-type biogenesis protein; Code: O; COG: COG2386; heme exporter protein B 2088032..2088694 Shigella boydii Sb227 3781090 YP_408514.1 CDS ccmC NC_007613.1 2088736 2089473 D Code: O; COG: COG0755; heme exporter protein C 2088736..2089473 Shigella boydii Sb227 3781091 YP_408515.1 CDS ccmD NC_007613.1 2089470 2089679 D Code: U; COG: COG3114; heme exporter protein C 2089470..2089679 Shigella boydii Sb227 3781092 YP_408516.1 CDS ccmE NC_007613.1 2089676 2090155 D cytochrome c biogenesis; CycJ; periplasmic heme chaperone that binds heme transiently via a histidine residue and delivers it to newly synthesized and exported c-type cytochromes; requires the ATP hydrolysis activity of the CcmA protein in order to transfer the heme to the apocytochrome; part of the cytochrome c maturation system; periplasmic protein anchored to the inner membrane; cytochrome c-type biogenesis protein CcmE 2089676..2090155 Shigella boydii Sb227 3781093 YP_408517.1 CDS ccmF NC_007613.1 2090152 2092095 D Code: O; COG: COG1138; cytochrome c-type biogenesis protein 2090152..2092095 Shigella boydii Sb227 3781094 YP_408518.1 CDS dsbE NC_007613.1 2092092 2092649 D in biogenesis of cytochrome c?; Code: OC; COG: COG0526; disulfide oxidoreductase 2092092..2092649 Shigella boydii Sb227 3781095 YP_408519.1 CDS ccmH NC_007613.1 2092646 2093698 D Code: O; COG: COG4235; subunit of heme lyase 2092646..2093698 Shigella boydii Sb227 3781096 YP_408520.1 CDS narP NC_007613.1 2093733 2094380 R sensor NarQ; nitrate/nitrite response regulator NarP; NarP is phosphorylated by NarX and NarQ and can activate fdnG and nitrite or nitrate reductase systems; represses expression of other anaerobic genes; transcriptional regulator NarP complement(2093733..2094380) Shigella boydii Sb227 3781097 YP_408521.1 CDS insB NC_007613.1 2094573 2095076 R Code: L; COG: COG1662; IS1 ORF2 complement(2094573..2095076) Shigella boydii Sb227 3781098 YP_408522.1 CDS SBO_2116 NC_007613.1 2095151 2095357 D IS1 encoded protein 2095151..2095357 Shigella boydii Sb227 3781099 YP_408523.1 CDS yejO NC_007613.1 2095354 2097687 D Code: MU; COG: COG3468; ABC transporter ATP-binding protein 2095354..2097687 Shigella boydii Sb227 3781100 YP_408524.1 CDS SBO_2118 NC_007613.1 2097956 2098216 D hypothetical protein 2097956..2098216 Shigella boydii Sb227 3781101 YP_408525.1 CDS SBO_2119 NC_007613.1 2098186 2098623 D protein encoded by prophage 2098186..2098623 Shigella boydii Sb227 3781102 YP_408526.1 CDS SBO_2120 NC_007613.1 2098366 2098647 R hypothetical protein complement(2098366..2098647) Shigella boydii Sb227 3781103 YP_408527.1 CDS SBO_2121 NC_007613.1 2098928 2099269 R hypothetical protein complement(2098928..2099269) Shigella boydii Sb227 3781104 YP_408528.1 CDS SBO_2122 NC_007613.1 2099315 2099758 D hypothetical protein 2099315..2099758 Shigella boydii Sb227 3781105 YP_408529.1 CDS SBO_2123 NC_007613.1 2099524 2099937 R hypothetical protein complement(2099524..2099937) Shigella boydii Sb227 3781106 YP_408530.1 CDS SBO_2124 NC_007613.1 2099950 2100285 R capsid protein small subunit complement(2099950..2100285) Shigella boydii Sb227 3781107 YP_408531.1 CDS SBO_2125 NC_007613.1 2100297 2101352 R major capsid protein complement(2100297..2101352) Shigella boydii Sb227 3781108 YP_408532.1 CDS SBO_2126 NC_007613.1 2101352 2101591 R hypothetical protein complement(2101352..2101591) Shigella boydii Sb227 3781109 YP_408533.1 CDS SBO_2127 NC_007613.1 2101810 2102034 R hypothetical protein complement(2101810..2102034) Shigella boydii Sb227 3781110 YP_408534.1 CDS SBO_2128 NC_007613.1 2102444 2102854 R Code: L; COG: COG0629; single stranded DNA-binding protein complement(2102444..2102854) Shigella boydii Sb227 3781111 YP_408535.1 CDS SBO_2129 NC_007613.1 2102851 2103132 R hypothetical protein complement(2102851..2103132) Shigella boydii Sb227 3781112 YP_408536.1 CDS SBO_2131 NC_007613.1 2103303 2104703 R hypothetical protein complement(2103303..2104703) Shigella boydii Sb227 3781114 YP_408537.1 CDS SBO_2130 NC_007613.1 2104691 2104978 D hypothetical protein 2104691..2104978 Shigella boydii Sb227 3781113 YP_408538.1 CDS SBO_2132 NC_007613.1 2105231 2105512 R hypothetical protein complement(2105231..2105512) Shigella boydii Sb227 3781115 YP_408539.1 CDS SBO_2133 NC_007613.1 2106574 2106780 R hypothetical protein complement(2106574..2106780) Shigella boydii Sb227 3781116 YP_408540.1 CDS SBO_2134 NC_007613.1 2107276 2108517 R Code: L; COG: COG0582; CP4-57-type integrase complement(2107276..2108517) Shigella boydii Sb227 3781117 YP_408541.1 CDS yejM NC_007613.1 2108887 2110647 R Code: R; COG: COG3083; sulfatase complement(2108887..2110647) Shigella boydii Sb227 3781119 YP_408542.1 CDS yejL NC_007613.1 2110667 2110894 R Code: S; COG: COG3082; hypothetical protein complement(2110667..2110894) Shigella boydii Sb227 3781120 YP_408543.1 CDS yejK NC_007613.1 2111076 2112083 D Code: R; COG: COG3081; nucleoid-associated protein NdpA 2111076..2112083 Shigella boydii Sb227 3781121 YP_408544.1 CDS rplY NC_007613.1 2112222 2112506 R the Ctc family of proteins consists of two types, one that contains the N-terminal ribosomal protein L25 domain only which in Escherichia coli binds the 5S rRNA while a subset of proteins contain a C-terminal extension that is involved in the stress response; 50S ribosomal protein L25 complement(2112222..2112506) Shigella boydii Sb227 3781122 YP_408545.1 CDS yejH NC_007613.1 2112631 2114391 R Code: KL; COG: COG1061; ATP-dependent helicase complement(2112631..2114391) Shigella boydii Sb227 3781123 YP_408546.1 CDS rsuA NC_007613.1 2114540 2115235 D catalyzes the synthesis pseudouridine from uracil-516 in 16S ribosomal RNA; 16S rRNA pseudouridylate synthase A 2114540..2115235 Shigella boydii Sb227 3781124 YP_408547.1 CDS yejG NC_007613.1 2116779 2117123 D hypothetical protein 2116779..2117123 Shigella boydii Sb227 3781126 YP_408548.1 CDS yejF NC_007613.1 2117127 2118716 R Code: R; COG: COG4172; ABC transporter ATP-binding protein complement(2117127..2118716) Shigella boydii Sb227 3781127 YP_408549.1 CDS yejE NC_007613.1 2118718 2119743 R Code: R; COG: COG4239; transport system permease complement(2118718..2119743) Shigella boydii Sb227 3781128 YP_408550.1 CDS yejB NC_007613.1 2119743 2120837 R Code: R; COG: COG4174; transport system permease complement(2119743..2120837) Shigella boydii Sb227 3781129 YP_408551.2 CDS yejA NC_007613.1 2120838 2122652 R Code: E; COG: COG4166; hypothetical protein complement(2120838..2122652) Shigella boydii Sb227 3781130 YP_408552.1 CDS rtn NC_007613.1 2122734 2124290 R Code: T; COG: COG2200; hypothetical protein complement(2122734..2124290) Shigella boydii Sb227 3781131 YP_408553.1 CDS spr NC_007613.1 2124471 2125037 R by similarity, Spr seems to have peptidase activity; involved in thermoresistance; outer membrane lipoprotein complement(2124471..2125037) Shigella boydii Sb227 3781132 YP_408554.1 CDS SBO_2150 NC_007613.1 2125449 2126198 R Code: I; COG: COG0671; hypothetical protein complement(2125449..2126198) Shigella boydii Sb227 3781133 YP_408555.1 CDS yeiR NC_007613.1 2126201 2127187 R Code: R; COG: COG0523; hypothetical protein complement(2126201..2127187) Shigella boydii Sb227 3781134 YP_408556.1 CDS yeiQ NC_007613.1 2127305 2128771 R Code: G; COG: COG0246; oxidoreductase complement(2127305..2128771) Shigella boydii Sb227 3781135 YP_408557.2 CDS yeiP NC_007613.1 2128994 2129566 R Stimulates the peptidyltransferase activity of the 70S ribosome and enhances dipeptide synthesis with N-formylmethionyl-tRNA and puromycin in vitro, suggesting its involvement in the formation of the first peptide bond of a protein; elongation factor P complement(2128994..2129566) Shigella boydii Sb227 3781136 YP_408558.1 CDS yeiO NC_007613.1 2129972 2131153 R Code: GEPR; COG: COG0477; transport complement(2129972..2131153) Shigella boydii Sb227 3781137 YP_408559.1 CDS fruB NC_007613.1 2131521 2132651 D phosphoenolpyruvate (PEP)-dependent, sugar transporting phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIA is phosphorylated by phospho-HP which then transfers the phosphoryl group to the IIB componentr; PTS system fructose-specific transporter subunit IIA/HPr protein 2131521..2132651 Shigella boydii Sb227 3781138 YP_408560.1 CDS fruK NC_007613.1 2132651 2133589 D converts fructose-1-phosphate and ATP to fructose-1,6-bisphosphate and ADP; highly specific for fructose-1-phopshate; similar to PfkB; forms homodimers; 1-phosphofructokinase 2132651..2133589 Shigella boydii Sb227 3781139 YP_408561.1 CDS fruA NC_007613.1 2133606 2135297 D phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system fructose-specific transporter subunit IIBC 2133606..2135297 Shigella boydii Sb227 3781140 YP_408562.1 CDS SBO_2158 NC_007613.1 2135745 2135915 R IS1 encoded protein complement(2135745..2135915) Shigella boydii Sb227 3781141 YP_408563.1 CDS insB NC_007613.1 2136008 2136511 D Code: L; COG: COG1662; IS1 ORF2 2136008..2136511 Shigella boydii Sb227 3781142 YP_408564.1 CDS yeiN NC_007613.1 2137924 2138814 R Code: Q; COG: COG2313; hypothetical protein complement(2137924..2138814) Shigella boydii Sb227 3781144 YP_408565.1 CDS insB NC_007613.1 2139777 2140280 R Code: L; COG: COG1662; IS1 ORF2 complement(2139777..2140280) Shigella boydii Sb227 3781146 YP_408566.1 CDS SBO_2164 NC_007613.1 2140373 2140543 D IS1 encoded protein 2140373..2140543 Shigella boydii Sb227 3781147 YP_408567.1 CDS yeiK NC_007613.1 2140536 2141264 D Code: F; COG: COG1957; hypothetical protein 2140536..2141264 Shigella boydii Sb227 3781148 YP_408568.1 CDS yeiJ NC_007613.1 2141364 2142614 D Code: F; COG: COG1972; transport system permease 2141364..2142614 Shigella boydii Sb227 3781149 YP_408569.1 CDS yeiI NC_007613.1 2142670 2143758 R Code: G; COG: COG0524; hypothetical protein complement(2142670..2143758) Shigella boydii Sb227 3781150 YP_408570.1 CDS nfo NC_007613.1 2143761 2144618 R Assists in DNA repair by cleaving phosphodiester bonds at apurinic or apyrimidinic sties to produce new 5' ends that are base-free deoxyribose 5-phosphate residues; endonuclease IV complement(2143761..2144618) Shigella boydii Sb227 3781151 YP_408571.1 CDS yeiH NC_007613.1 2144692 2145741 R Code: S; COG: COG2855; hypothetical protein complement(2144692..2145741) Shigella boydii Sb227 3781152 YP_408572.1 CDS yeiE NC_007613.1 2145841 2146722 D Code: K; COG: COG0583; DNA-binding transcriptional regulator 2145841..2146722 Shigella boydii Sb227 3781153 YP_408573.1 CDS lysP NC_007613.1 2146927 2148396 D Code: E; COG: COG0833; lysine transporter 2146927..2148396 Shigella boydii Sb227 3781154 YP_408574.1 CDS yeiG NC_007613.1 2150701 2151537 R Code: R; COG: COG0627; esterase complement(2150701..2151537) Shigella boydii Sb227 3781156 YP_408575.1 CDS folE NC_007613.1 2151795 2152463 D involved in the first step of tetrahydrofolate biosynthesis; catalyzes the formation of formate and 2-amino-4-hydroxy-6-(erythro-1,2, 3-trihydroxypropyl)dihydropteridine triphosphate from GTP and water; forms a homopolymer; GTP cyclohydrolase I 2151795..2152463 Shigella boydii Sb227 3781157 YP_408576.1 CDS yeiB NC_007613.1 2152480 2153637 D Code: S; COG: COG2311; hypothetical protein 2152480..2153637 Shigella boydii Sb227 3781158 YP_408577.1 CDS galS NC_007613.1 2153779 2154819 D galactose operon inducer; negative regulator of the mglBAC operon for galactose utilization; DNA-binding transcriptional regulator GalS 2153779..2154819 Shigella boydii Sb227 3781159 YP_408578.1 CDS mglB NC_007613.1 2155099 2156097 D receptor for galactose taxis; Code: G; COG: COG1879; galactose-binding transport protein 2155099..2156097 Shigella boydii Sb227 3781160 YP_408579.1 CDS mglA NC_007613.1 2156158 2157678 D with MglBC transports galactose or methyl galactoside into the cell; contains 2 ATP binding domains; galactose/methyl galaxtoside transporter ATP-binding protein 2156158..2157678 Shigella boydii Sb227 3781161 YP_408580.1 CDS mglC NC_007613.1 2157694 2158704 D ABC transporter; functions in galactose transport; part of MglA2C2B transporter complex; beta-methylgalactoside transporter inner membrane protein 2157694..2158704 Shigella boydii Sb227 3781162 YP_408581.2 CDS SBO_2181 NC_007613.1 2159744 2160649 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(2159744..2160649) Shigella boydii Sb227 3781164 YP_408582.1 CDS SBO_2182 NC_007613.1 2160607 2160972 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(2160607..2160972) Shigella boydii Sb227 3781165 YP_408583.1 CDS ycaN NC_007613.1 2162391 2163299 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(2162391..2163299) Shigella boydii Sb227 3781167 YP_408584.1 CDS ycaK NC_007613.1 2163399 2163989 D Code: R; COG: COG2249; hypothetical protein 2163399..2163989 Shigella boydii Sb227 3781168 YP_408585.1 CDS SBO_2186 NC_007613.1 2163959 2164165 R IS1 encoded protein complement(2163959..2164165) Shigella boydii Sb227 3781169 YP_408586.1 CDS insB NC_007613.1 2164240 2164743 D Code: L; COG: COG1662; IS1 ORF2 2164240..2164743 Shigella boydii Sb227 3781170 YP_408587.1 CDS pflA NC_007613.1 2164848 2165588 R activates pyruvate formate-lyase 1 under anaerobic conditions; pyruvate formate lyase-activating enzyme 1 complement(2164848..2165588) Shigella boydii Sb227 3781171 YP_408588.1 CDS pflB NC_007613.1 2165780 2168062 R Code: C; COG: COG1882; formate acetyltransferase 1 complement(2165780..2168062) Shigella boydii Sb227 3781172 YP_408589.1 CDS focA NC_007613.1 2168117 2168974 R formate channel 1; Code: P; COG: COG2116; formate transporter complement(2168117..2168974) Shigella boydii Sb227 3781173 YP_408590.1 CDS ycaO NC_007613.1 2169380 2171149 R Code: S; COG: COG1944; hypothetical protein complement(2169380..2171149) Shigella boydii Sb227 3781174 YP_408591.1 CDS ycaP NC_007613.1 2171271 2171963 D Code: S; COG: COG2323; hypothetical protein 2171271..2171963 Shigella boydii Sb227 3781175 YP_408592.1 CDS serC NC_007613.1 2172162 2173250 D catalyzes the formation of 3-phosphonooxypyruvate and glutamate from O-phospho-L-serine and 2-oxoglutarate; required both in major phosphorylated pathway of serine biosynthesis and in the biosynthesis of pyridoxine; phosphoserine aminotransferase 2172162..2173250 Shigella boydii Sb227 3781176 YP_408593.1 CDS aroA NC_007613.1 2173321 2174604 D catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis; 3-phosphoshikimate 1-carboxyvinyltransferase 2173321..2174604 Shigella boydii Sb227 3781177 YP_408594.1 CDS SBO_2195 NC_007613.1 2174677 2175315 R IS4 orf complement(2174677..2175315) Shigella boydii Sb227 3781178 YP_408595.1 CDS SBO_2196 NC_007613.1 2175434 2176024 R IS4 orf complement(2175434..2176024) Shigella boydii Sb227 3781179 YP_408596.1 CDS cmk NC_007613.1 2177149 2177832 D Catalyzes the formation of (d)CDP from ATP and (d)CMP; cytidylate kinase 2177149..2177832 Shigella boydii Sb227 3781181 YP_408597.1 CDS rpsA NC_007613.1 2177943 2179616 D in Escherichia coli this protein is involved in binding to the leader sequence of mRNAs and is itself bound to the 30S subunit; autoregulates expression via a C-terminal domain; in most gram negative organisms this protein is composed of 6 repeats of the S1 domain while in gram positive there are 4 repeats; the S1 nucleic acid-binding domain is found associated with other proteins; 30S ribosomal protein S1 2177943..2179616 Shigella boydii Sb227 3781182 YP_408598.1 CDS ihfB NC_007613.1 2179776 2180060 D site-specific recombination; This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control; integration host factor subunit beta 2179776..2180060 Shigella boydii Sb227 3781183 YP_408599.2 CDS ycaI NC_007613.1 2180267 2182435 D Code: R; COG: COG0658; hypothetical protein 2180267..2182435 Shigella boydii Sb227 3781184 YP_408600.1 CDS msbA NC_007613.1 2182576 2184324 D multicopy suppressor of htrB; involved in the transport of lipid A across the inner membrane; lipid transporter ATP-binding protein/permease 2182576..2184324 Shigella boydii Sb227 3781185 YP_408601.1 CDS lpxK NC_007613.1 2184321 2185307 D transfers the gamma-phosphate of ATP to the 4' position of a tetraacyldisaccharide 1-phosphate intermediate to form tetraacyldisaccharide 1,4'-bis-phosphate; tetraacyldisaccharide 4'-kinase 2184321..2185307 Shigella boydii Sb227 3781186 YP_408602.1 CDS ycaQ NC_007613.1 2185344 2186576 D Code: S; COG: COG3214; hypothetical protein 2185344..2186576 Shigella boydii Sb227 3781187 YP_408603.1 CDS ycaR NC_007613.1 2186628 2186810 D Code: S; COG: COG2835; hypothetical protein 2186628..2186810 Shigella boydii Sb227 3781188 YP_408604.1 CDS kdsB NC_007613.1 2186807 2187553 D CMP-2-keto-3-deoxyoctulosonic acid synthetase; catalyzes the formation of CMP-3-deoxy-D-manno-octulosonate from CTP and 3-deoxy-D-manno-octulosonate which is incorporated into LPS; 3-deoxy-manno-octulosonate cytidylyltransferase 2186807..2187553 Shigella boydii Sb227 3781189 YP_408605.1 CDS SBO_2207 NC_007613.1 2187707 2188600 D hypothetical protein 2187707..2188600 Shigella boydii Sb227 3781190 YP_408606.1 CDS ycbC NC_007613.1 2188577 2189356 R Code: S; COG: COG1434; hypothetical protein complement(2188577..2189356) Shigella boydii Sb227 3781191 YP_408607.1 CDS smtA NC_007613.1 2189492 2190277 D involved in cellular zinc and cadmium homeostasis by binding excess metal ions to its cysteine sulfurs and histidine nitrogens; expression of smtA in cyanobacteria is repressed by SmtB at low concentrations of zinc; NO elicits release of Zn ions from SmtA; metallothionein SmtA 2189492..2190277 Shigella boydii Sb227 3781192 YP_408608.1 CDS mukF NC_007613.1 2190274 2191596 D killing factor KICB; acts with MukB and MukE to condense the chromosome and allow for segregation during cell division; condesin subunit F 2190274..2191596 Shigella boydii Sb227 3781193 YP_408609.1 CDS mukE NC_007613.1 2191604 2192281 D acts with MukB and MukF to condense the chromosome and allow for segregation during cell division; condesin subunit E 2191604..2192281 Shigella boydii Sb227 3781194 YP_408610.1 CDS mukB NC_007613.1 2192281 2196741 D SMC (structural maintenance of chromosomes) family of proteins; involved in chromosome condensatin and partitioning; forms a homodimer and the C-terminal is essential for DNA-binding activity while the purified N-terminal domain binds FtsZ; mutations result in cell division defects; cell division protein MukB 2192281..2196741 Shigella boydii Sb227 3781195 YP_408611.1 CDS insB NC_007613.1 2197042 2197545 R Code: L; COG: COG1662; IS1 ORF2 complement(2197042..2197545) Shigella boydii Sb227 3781196 YP_408612.1 CDS SBO_2214 NC_007613.1 2197768 2198316 R IS4 orf complement(2197768..2198316) Shigella boydii Sb227 3781197 YP_408613.1 CDS SBO_2215 NC_007613.1 2198366 2198956 R IS4 orf complement(2198366..2198956) Shigella boydii Sb227 3781198 YP_408614.1 CDS ycbB NC_007613.1 2199217 2201064 D Code: S; COG: COG2989; hypothetical protein 2199217..2201064 Shigella boydii Sb227 3781199 YP_408615.1 CDS ycbK NC_007613.1 2201245 2201793 D Code: S; COG: COG3108; hypothetical protein 2201245..2201793 Shigella boydii Sb227 3781200 YP_408616.1 CDS ycbL NC_007613.1 2201820 2202467 D Code: R; COG: COG0491; hypothetical protein 2201820..2202467 Shigella boydii Sb227 3781201 YP_408617.1 CDS aspC NC_007613.1 2202689 2203879 R catalyzes the formation of L-glutamate and an aromatic oxo acid from an aromatic amino acid and 2-oxoglutarate; aromatic amino acid aminotransferase complement(2202689..2203879) Shigella boydii Sb227 3781202 YP_408618.1 CDS ompF NC_007613.1 2204064 2205152 R Ia;b;F; outer membrane porin F; 1a; Ia; b; outer membrane protein F complement(2204064..2205152) Shigella boydii Sb227 3781203 YP_408619.1 CDS asnC NC_007613.1 2205753 2207153 R catalyzes a two-step reaction, first charging an asparagine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; asparaginyl-tRNA synthetase complement(2205753..2207153) Shigella boydii Sb227 3781204 YP_408620.1 CDS pncB NC_007613.1 2207322 2208524 R catalyzes the formation of nictonate and 5-phospho-alpha-D-ribose 1-diphosphate from nicotinate D-ribonucleotide and diphosphate; nicotinate phosphoribosyltransferase complement(2207322..2208524) Shigella boydii Sb227 3781205 YP_408621.1 CDS pepN NC_007613.1 2208790 2211402 D Code: E; COG: COG0308; aminopeptidase N 2208790..2211402 Shigella boydii Sb227 3781206 YP_408622.2 CDS ycbO NC_007613.1 2214137 2215096 R part of the ABC type transport system SsuABC for aliphatic sulfonates; with SsuA being the periplasmic subunit SsuB the ATP-binding subunit and SsuC the permease; alkanesulfonate transporter substrate-binding subunit complement(2214137..2215096) Shigella boydii Sb227 3781210 YP_408623.1 CDS ycbP NC_007613.1 2215089 2215664 R Code: R; COG: COG0431; NAD(P)H-dependent FMN reductase complement(2215089..2215664) Shigella boydii Sb227 3781211 YP_408624.1 CDS insB NC_007613.1 2216623 2217126 D Code: L; COG: COG1662; IS1 ORF2 2216623..2217126 Shigella boydii Sb227 3781213 YP_408625.1 CDS cbpA NC_007613.1 2217392 2218312 D functions closely related to DnaJ; functional analog of DnaJ; co-chaperone with DnaK, molecular chaperone in an adaptive response to environmental stresses other than heat shock; curved DNA-binding protein CbpA 2217392..2218312 Shigella boydii Sb227 3781214 YP_408626.1 CDS yccD NC_007613.1 2218312 2218617 D with CpbA modulates the activity of the dnaK chaperone system; interacts with CbpA and inhibits both the DnaJ-like co-chaperone activity and the DNA binding activity of CbpA; chaperone-modulator protein CbpM 2218312..2218617 Shigella boydii Sb227 3781215 YP_408627.1 CDS torD NC_007613.1 2218710 2219309 R TorD; involved in the biogenesis of torA; acts on torA before the insertion of the molybdenum cofactor and, as a result, probably favors a conformation of the apoenzyme that is competent for acquiring the cofactor; chaperone protein TorD complement(2218710..2219309) Shigella boydii Sb227 3781216 YP_408628.1 CDS torC NC_007613.1 2221886 2223058 R Code: C; COG: COG3005; trimethylamine N-oxide reductase, cytochrome c-type subunit complement(2221886..2223058) Shigella boydii Sb227 3781218 YP_408629.1 CDS torR NC_007613.1 2223178 2223870 D sensor TorS; response regulator in two-component regulatory system with TorS; involved in regulation of trimethylamine N-oxide reductase genes; DNA-binding transcriptional regulator TorR 2223178..2223870 Shigella boydii Sb227 3781219 YP_408630.1 CDS torT NC_007613.1 2223843 2224832 R periplasmic sensory protein associated with the TorRS two-component regulatory system; TMAO reductase system periplasmic protein TorT complement(2223843..2224832) Shigella boydii Sb227 3781220 YP_408631.2 CDS torS NC_007613.1 2224915 2227659 D regulator TorR; Member of the two-component regulatory system torS/torR involved in the anaerobic utilization of trimethylamine-N-oxide; hybrid sensory histidine kinase TorS 2224915..2227659 Shigella boydii Sb227 3781221 YP_408632.1 CDS yccM NC_007613.1 2228030 2228803 D Code: C; COG: COG0348; hypothetical protein 2228030..2228803 Shigella boydii Sb227 3781222 YP_408633.1 CDS sfa NC_007613.1 2229015 2229245 R cold shock gene complement(2229015..2229245) Shigella boydii Sb227 3781223 YP_408634.1 CDS cspG NC_007613.1 2229419 2229631 R similar to Salmonella cold shock protein; Code: K; COG: COG1278; cold shock protein CspG complement(2229419..2229631) Shigella boydii Sb227 3781224 YP_408635.1 CDS cspH NC_007613.1 2229917 2230129 D Code: K; COG: COG1278; cold shock-like protein 2229917..2230129 Shigella boydii Sb227 3781225 YP_408636.1 CDS ymcD NC_007613.1 2230553 2230876 D hypothetical protein 2230553..2230876 Shigella boydii Sb227 3781226 YP_408637.1 CDS ymcC NC_007613.1 2230983 2231627 D regulator 2230983..2231627 Shigella boydii Sb227 3781227 YP_408638.1 CDS ymcB NC_007613.1 2231624 2232370 D hypothetical protein 2231624..2232370 Shigella boydii Sb227 3781228 YP_408639.1 CDS ymcA NC_007613.1 2232370 2234466 D hypothetical protein 2232370..2234466 Shigella boydii Sb227 3781229 YP_408640.1 CDS yccZ NC_007613.1 2234512 2235651 D Code: M; COG: COG1596; function in exopolysaccharide production 2234512..2235651 Shigella boydii Sb227 3781230 YP_408641.2 CDS etp NC_007613.1 2235639 2236085 D Etk and Etp are a tyrosine kinase-tyrosine phosphatase pair, etp dephosphorylates etk; phosphotyrosine-protein phosphatase 2235639..2236085 Shigella boydii Sb227 3781231 YP_408642.1 CDS yccC NC_007613.1 2236105 2238285 D Code: M; COG: COG3206; cryptic autophosphorylating protein tyrosine kinase Etk 2236105..2238285 Shigella boydii Sb227 3781232 YP_408643.1 CDS appA NC_007613.1 2238400 2239698 R pH 2.5 acid phosphatase; periplasmic; phosphoanhydride phosphorylase complement(2238400..2239698) Shigella boydii Sb227 3781233 YP_408644.1 CDS yccB NC_007613.1 2239778 2239870 R expressed during stationary phase; membrane protein complement(2239778..2239870) Shigella boydii Sb227 3781234 YP_408645.1 CDS appB NC_007613.1 2239883 2241019 R Code: C; COG: COG1294; third cytochrome oxidase, subunit II complement(2239883..2241019) Shigella boydii Sb227 3781235 YP_408646.1 CDS appC NC_007613.1 2241031 2242575 R Code: C; COG: COG1271; third cytochrome oxidase, subunit I complement(2241031..2242575) Shigella boydii Sb227 3781236 YP_408647.1 CDS hyaF NC_007613.1 2242709 2243566 R nickel incorporation into hydrogenase 1 proteins; protein HyaF complement(2242709..2243566) Shigella boydii Sb227 3781237 YP_408648.1 CDS hyaE NC_007613.1 2243563 2243961 R processing of HyaA and HyaB proteins; involved in processing hydrogenase proteins HyaA and HyaB; hydrogenase-1 operon protein HyaE complement(2243563..2243961) Shigella boydii Sb227 3781238 YP_408649.1 CDS hyaD NC_007613.1 2243958 2244545 R processing of HyaA and HyaB proteins; HyaD; endopeptidase involved in the cleavage of the C-terminus end of HyaB (the large subunit of hydrogenase 1); hydrogenase 1 maturation protease complement(2243958..2244545) Shigella boydii Sb227 3781239 YP_408650.1 CDS hyaC NC_007613.1 2244542 2245249 R Code: C; COG: COG1969; hydrogenase 1 b-type cytochrome subunit complement(2244542..2245249) Shigella boydii Sb227 3781240 YP_408651.1 CDS hyaB NC_007613.1 2245268 2247061 R involved in hydrogen cycling during fermentative growth; hydrogenase 1 large subunit complement(2245268..2247061) Shigella boydii Sb227 3781241 YP_408652.1 CDS hyaA NC_007613.1 2247058 2248176 R Code: C; COG: COG1740; hydrogenase 1 small subunit complement(2247058..2248176) Shigella boydii Sb227 3781242 YP_408653.1 CDS yccA NC_007613.1 2248896 2249555 D Code: R; COG: COG0670; hypothetical protein 2248896..2249555 Shigella boydii Sb227 3781244 YP_408654.2 CDS yccK NC_007613.1 2249646 2249975 D transfers sulfur from TusBCD complex to MnmA; involved in thiouridation of U34 position of some tRNAs; sulfur transfer protein TusE 2249646..2249975 Shigella boydii Sb227 3781245 YP_408655.1 CDS SBO_2263 NC_007613.1 2249972 2250250 R catalyzes the hydrolysis of acylphosphate; acylphosphatase complement(2249972..2250250) Shigella boydii Sb227 3781246 YP_408656.1 CDS SBO_2264 NC_007613.1 2250432 2251535 D Code: R; COG: COG1092; oxidoreductase 2250432..2251535 Shigella boydii Sb227 3781247 YP_408657.1 CDS yccV NC_007613.1 2251542 2251910 D Code: S; COG: COG3785; heat shock protein HspQ 2251542..2251910 Shigella boydii Sb227 3781248 YP_408658.1 CDS SBO_2266 NC_007613.1 2251955 2252449 R Code: R; COG: COG1832; hypothetical protein complement(2251955..2252449) Shigella boydii Sb227 3781249 YP_408659.1 CDS SBO_2267 NC_007613.1 2252541 2253203 D Code: S; COG: COG3110; hypothetical protein 2252541..2253203 Shigella boydii Sb227 3781250 YP_408660.2 CDS mgsA NC_007613.1 2253299 2253757 D catalyzes the formation of methylglyoxal from glycerone phosphate; methylglyoxal synthase 2253299..2253757 Shigella boydii Sb227 3781251 YP_408661.1 CDS helD NC_007613.1 2253789 2255843 R catalyzes the ATP-dependent unwinding of duplex DNA in the 3' to 5' direction with respect to the bound single strand; DNA helicase IV complement(2253789..2255843) Shigella boydii Sb227 3781252 YP_408662.1 CDS yccF NC_007613.1 2255966 2256412 D Code: S; COG: COG3304; hypothetical protein 2255966..2256412 Shigella boydii Sb227 3781253 YP_408663.1 CDS SBO_2271 NC_007613.1 2256422 2258584 D Code: S; COG: COG1289; hypothetical protein 2256422..2258584 Shigella boydii Sb227 3781254 YP_408664.1 CDS SBO_2272 NC_007613.1 2258547 2259176 R Code: K; COG: COG3070; hypothetical protein complement(2258547..2259176) Shigella boydii Sb227 3781255 YP_408665.1 CDS sulA NC_007613.1 2259395 2259904 D inhibits cell division and ftsZ ring formation; Code: D; COG: COG5404; SOS cell division inhibitor 2259395..2259904 Shigella boydii Sb227 3781256 YP_408666.1 CDS ompA NC_007613.1 2260261 2261307 D II*;G;d; OmpA is believed to be a porin, involved in diffusion of nonspecific small solutes across the outer membrane. It is the most abundant integral protein of the outer membrane of E. coli, and it is known to play a role as a phage receptor, a mediator of F-factor dependent conjugation, and in maintaining the structural shape of the outer membrane; 3a; II*; G; d; outer membrane protein A 2260261..2261307 Shigella boydii Sb227 3781257 YP_408667.1 CDS ycbG NC_007613.1 2261433 2261837 R Code: S; COG: COG3120; hypothetical protein complement(2261433..2261837) Shigella boydii Sb227 3781258 YP_408668.1 CDS SBO_2276 NC_007613.1 2262022 2263782 D Code: O; COG: COG1067; ATP-dependent protease 2262022..2263782 Shigella boydii Sb227 3781259 YP_408669.1 CDS fabA NC_007613.1 2263851 2264369 D trans-2-decenoyl-ACP isomerase; catalyzes the dehydration of (3R)-3-hydroxydecanoyl-ACP to 2,3-decenoyl-ACP or 3,4-decenoyl-ACP; 3-hydroxydecanoyl-ACP dehydratase 2263851..2264369 Shigella boydii Sb227 3781260 YP_408670.1 CDS rmf NC_007613.1 2264439 2264606 R Code: J; COG: COG3130; ribosome modulation factor complement(2264439..2264606) Shigella boydii Sb227 3781261 YP_408671.1 CDS ymbA NC_007613.1 2264862 2265410 R Code: S; COG: COG3009; hypothetical protein complement(2264862..2265410) Shigella boydii Sb227 3781262 YP_408672.1 CDS pqiB NC_007613.1 2265422 2267062 R Code: R; COG: COG3008; paraquat-inducible protein B complement(2265422..2267062) Shigella boydii Sb227 3781263 YP_408673.1 CDS pqiA NC_007613.1 2267067 2268320 R Code: S; COG: COG2995; paraquat-inducible protein A complement(2267067..2268320) Shigella boydii Sb227 3781264 YP_408674.1 CDS uup NC_007613.1 2268450 2270357 R Uup; in Escherichia coli this cytoplasmic protein was shown to contain ATPase activity; mutations in this gene affect RecA-independent excision of transposons and affects Mu bacteriophage growth; ABC transporter ATPase complement(2268450..2270357) Shigella boydii Sb227 3781265 YP_408675.1 CDS rlmL NC_007613.1 2270369 2272477 R catalyzes the N2-methyl guanosine modification of the G2445 residue of 23S rRNA; 23S rRNA m(2)G2445 methyltransferase complement(2270369..2272477) Shigella boydii Sb227 3781266 YP_408676.1 CDS SBO_2284 NC_007613.1 2272721 2273830 D Code: R; COG: COG3217; hypothetical protein 2272721..2273830 Shigella boydii Sb227 3781267 YP_408677.1 CDS ycbW NC_007613.1 2273827 2274405 R hypothetical protein complement(2273827..2274405) Shigella boydii Sb227 3781268 YP_408678.1 CDS pyrD NC_007613.1 2274543 2275553 R catalyzes the conversion of dihydroorotate to orotate in the pyrimidine biosynthesis pathway; uses a flavin nucleotide as an essential cofactor; class 2 enzymes are monomeric and compared to the class 1 class 2 possess an extended N terminus, which plays a role in the membrane association of the enzyme and provides the binding site for the respiratory quinones that serve as physiological electron acceptors; dihydroorotate dehydrogenase 2 complement(2274543..2275553) Shigella boydii Sb227 3781269 YP_408679.1 CDS ycbF NC_007613.1 2275664 2276401 R Code: NU; COG: COG3121; pili assembly chaperone complement(2275664..2276401) Shigella boydii Sb227 3781270 YP_408680.1 CDS insB NC_007613.1 2276447 2276950 R Code: L; COG: COG1662; IS1 ORF2 complement(2276447..2276950) Shigella boydii Sb227 3781271 YP_408681.1 CDS ais NC_007613.1 2277173 2277847 R protein induced by aluminum complement(2277173..2277847) Shigella boydii Sb227 3781272 YP_408682.2 CDS SBO_2290 NC_007613.1 2278098 2279237 D catalyzes the conversion of UDP-4-keto-arabinose to UDP-4-amino-4-deoxy-L-arabinose; UDP-4-amino-4-deoxy-L-arabinose--oxoglutarate aminotransferase 2278098..2279237 Shigella boydii Sb227 3781273 YP_408683.1 CDS SBO_2291 NC_007613.1 2279241 2280209 D catalyzes the transfer of 4-deoxy-4-formamido-L-arabinose from UDP to undecaprenyl phosphate; undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase 2279241..2280209 Shigella boydii Sb227 3781274 YP_408684.1 CDS SBO_2292 NC_007613.1 2280209 2282191 D Bifunctional polymyxin resistance arnA protein; catalyzes the decarboxylation of UDP-glucuronic acid to UDP-4-keto-arabinose and the addition of a formyl group to UDP-4-amino-4-deoxy-L-arabinose to form UDP-L-4-formamido-arabinose; active in certain mutant strains; bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase 2280209..2282191 Shigella boydii Sb227 3781275 YP_408685.1 CDS SBO_2293 NC_007613.1 2282188 2283078 D Code: G; COG: COG0726; hypothetical protein 2282188..2283078 Shigella boydii Sb227 3781276 YP_408686.1 CDS arnT NC_007613.1 2283078 2284730 D catalyzes the addition of 4-amino-4-deoxy-L-arabinose to lipid A; 4-amino-4-deoxy-L-arabinose transferase 2283078..2284730 Shigella boydii Sb227 3781277 YP_408687.2 CDS SBO_2295 NC_007613.1 2285062 2285448 D Code: GER; COG: COG0697; hypothetical protein 2285062..2285448 Shigella boydii Sb227 3781278 YP_408688.1 CDS pmrD NC_007613.1 2285442 2285738 R polymyxin resistance protein B complement(2285442..2285738) Shigella boydii Sb227 3781279 YP_408689.1 CDS menE NC_007613.1 2285818 2287173 R Code: IQ; COG: COG0318; O-succinylbenzoic acid--CoA ligase complement(2285818..2287173) Shigella boydii Sb227 3781280 YP_408690.1 CDS menC NC_007613.1 2287170 2288132 R conversion of chorismate to 2-o-succinylbenzoyl-CoA; catalyzes the dehydration of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylic acid to form O-succinylbenzoate; O-succinylbenzoate synthase complement(2287170..2288132) Shigella boydii Sb227 3781281 YP_408691.1 CDS menB NC_007613.1 2288132 2288989 R catalyzes the formation of 1,4-dihydroxy-2-naphthoate from O-succinylbenzoyl-CoA; naphthoate synthase complement(2288132..2288989) Shigella boydii Sb227 3781282 YP_408692.1 CDS yfbB NC_007613.1 2289004 2289762 R catalyzes the hydrolysis of the thioester bond in palmitoyl-CoA; acyl-CoA thioester hydrolase YfbB complement(2289004..2289762) Shigella boydii Sb227 3781283 YP_408693.1 CDS menD NC_007613.1 2289759 2291429 R SHCHC synthase; SEPHCHC synthase; forms 5-enolpyruvoyl-6-hydroxy-2-succinyl-cyclohex-3-ene-1- carboxylate from 2-oxoglutarate and isochorismate in menaquinone biosynthesis; 2-succinyl-5-enolpyruvyl-6-hydroxy-3- cyclohexene-1-carboxylate synthase complement(2289759..2291429) Shigella boydii Sb227 3781284 YP_408694.2 CDS menF NC_007613.1 2291518 2292813 R menaquinone biosynthesis; Code: HQ; COG: COG1169; isochorismate hydroxymutase complement(2291518..2292813) Shigella boydii Sb227 3781285 YP_408695.1 CDS elaB NC_007613.1 2292892 2293197 R Code: S; COG: COG4575; hypothetical protein complement(2292892..2293197) Shigella boydii Sb227 3781286 YP_408696.1 CDS elaA NC_007613.1 2293252 2293713 R Code: R; COG: COG2153; hypothetical protein complement(2293252..2293713) Shigella boydii Sb227 3781287 YP_408697.2 CDS elaC NC_007613.1 2293778 2294695 D member of metallo-beta-lactamase family; the purified enzyme from Escherichia coli forms dimeric zinc phosphodiesterase; in Bacillus subtilis this protein is a 3'-tRNA processing endoribonuclease and is essential while in Escherichia coli it is not; associates with two zinc ions; ribonuclease Z 2293778..2294695 Shigella boydii Sb227 3781288 YP_408698.1 CDS insB NC_007613.1 2294740 2295222 R Code: L; COG: COG1662; IS1 ORF2 complement(2294740..2295222) Shigella boydii Sb227 3781289 YP_408699.1 CDS SBO_2307 NC_007613.1 2295297 2295530 D IS1 encoded protein 2295297..2295530 Shigella boydii Sb227 3781290 YP_408700.1 CDS yfbM NC_007613.1 2296307 2296651 D hypothetical protein 2296307..2296651 Shigella boydii Sb227 3781291 YP_408701.2 CDS nuoN NC_007613.1 2296866 2298323 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit N complement(2296866..2298323) Shigella boydii Sb227 3781292 YP_408702.1 CDS nuoM NC_007613.1 2298330 2299859 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit M complement(2298330..2299859) Shigella boydii Sb227 3781293 YP_408703.1 CDS nuoL NC_007613.1 2300023 2301864 R Catalyzes the transfer of electrons from NADH to ubiquinone; NADH dehydrogenase subunit L complement(2300023..2301864) Shigella boydii Sb227 3781294 YP_408704.1 CDS nuoK NC_007613.1 2301861 2302163 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit K complement(2301861..2302163) Shigella boydii Sb227 3781295 YP_408705.1 CDS nuoJ NC_007613.1 2302160 2302714 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit J complement(2302160..2302714) Shigella boydii Sb227 3781296 YP_408706.1 CDS nuoI NC_007613.1 2302726 2303268 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit I complement(2302726..2303268) Shigella boydii Sb227 3781297 YP_408707.1 CDS nuoH NC_007613.1 2303283 2304260 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit H complement(2303283..2304260) Shigella boydii Sb227 3781298 YP_408708.1 CDS nuoG NC_007613.1 2304257 2306989 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit G complement(2304257..2306989) Shigella boydii Sb227 3781299 YP_408709.1 CDS nuoF NC_007613.1 2307036 2308373 R shuttles electrons from NADH, via FMN and iron-sulfur (Fe-S) centers, to quinones in the respiratory chain; NuoF is part of the soluble NADH dehydrogenase fragment, which represents the electron input part of NADH dehydrogenase; NADH dehydrogenase I subunit F complement(2307036..2308373) Shigella boydii Sb227 3781300 YP_408710.1 CDS nuoE NC_007613.1 2308370 2308870 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit E complement(2308370..2308870) Shigella boydii Sb227 3781301 YP_408711.1 CDS nuoC NC_007613.1 2308873 2310675 R NuoCD; NDH-1 shuttles electrons from NADH, via FMN and iron-sulfur (Fe-S) centers, to quinones in the respiratory chain; subunits NuoCD, E, F, and G constitute the peripheral sector of the complex; in Escherichia coli this gene encodes a fusion protein of NuoC and NuoD that are found separate in other organisms; NADH:ubiquinone oxidoreductase subunit C/D complement(2308873..2310675) Shigella boydii Sb227 3781302 YP_408712.1 CDS nuoB NC_007613.1 2310769 2311431 R The point of entry for the majority of electrons that traverse the respiratory chain eventually resulting in the reduction of oxygen; NADH dehydrogenase subunit B complement(2310769..2311431) Shigella boydii Sb227 3781303 YP_408713.1 CDS nuoA NC_007613.1 2311447 2311890 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit A complement(2311447..2311890) Shigella boydii Sb227 3781304 YP_408714.1 CDS lrhA NC_007613.1 2312521 2313459 R LysR family; Code: K; COG: COG0583; NADH dehydrogenase transcriptional regulator complement(2312521..2313459) Shigella boydii Sb227 3781305 YP_408715.1 CDS SBO_2323 NC_007613.1 2314378 2315595 D broad specificity; family IV; in Corynebacterium glutamicum this protein can use glutamate, 2-aminobutyrate, and aspartate as amino donors and pyruvate as the acceptor; aminotransferase AlaT 2314378..2315595 Shigella boydii Sb227 3781306 YP_408716.1 CDS yfbS NC_007613.1 2316336 2318168 R Code: P; COG: COG0471; transporter complement(2316336..2318168) Shigella boydii Sb227 3781308 YP_408717.1 CDS SBO_2326 NC_007613.1 2318288 2319175 R Code: L; COG: COG2801; IS629 ORF2 complement(2318288..2319175) Shigella boydii Sb227 3781309 YP_408718.1 CDS SBO_2327 NC_007613.1 2319175 2319450 R Code: L; COG: COG2963; IS629 ORF1 complement(2319175..2319450) Shigella boydii Sb227 3781310 YP_408719.1 CDS yfbT NC_007613.1 2319568 2320218 R Code: R; COG: COG0637; phosphatase complement(2319568..2320218) Shigella boydii Sb227 3781311 YP_408720.2 CDS SBO_2329 NC_007613.1 2320229 2320723 R Code: S; COG: COG3013; hypothetical protein complement(2320229..2320723) Shigella boydii Sb227 3781312 YP_408721.1 CDS SBO_2330 NC_007613.1 2320807 2321262 R Code: S; COG: COG3092; hypothetical protein complement(2320807..2321262) Shigella boydii Sb227 3781313 YP_408722.1 CDS ackA NC_007613.1 2321600 2322802 D AckA utilizes acetate and can acetylate CheY which increases signal strength during flagellar rotation; utilizes magnesium and ATP; also involved in conversion of acetate to aceyl-CoA; acetate kinase 2321600..2322802 Shigella boydii Sb227 3781314 YP_408723.1 CDS pta NC_007613.1 2322877 2325021 D catalyzes the synthesis of acetylphosphate or propionylphosphate from acetyl-CoA or propionyl-CoA and inorganic phosphate; when using propionyl-CoA the enzyme is functioning in the anaerobic pathway catabolizing threonine to propionate; phosphate acetyltransferase 2322877..2325021 Shigella boydii Sb227 3781315 YP_408724.2 CDS yfcC NC_007613.1 2325211 2326731 D Code: S; COG: COG1288; hypothetical protein 2325211..2326731 Shigella boydii Sb227 3781316 YP_408725.1 CDS SBO_2334 NC_007613.1 2326764 2327306 R Code: LR; COG: COG0494; regulator complement(2326764..2327306) Shigella boydii Sb227 3781317 YP_408726.1 CDS yfcE NC_007613.1 2327364 2327918 R Code: R; COG: COG0622; phosphodiesterase complement(2327364..2327918) Shigella boydii Sb227 3781318 YP_408727.1 CDS yfcF NC_007613.1 2327971 2328603 R Code: O; COG: COG0625; hypothetical protein complement(2327971..2328603) Shigella boydii Sb227 3781319 YP_408728.1 CDS yfcG NC_007613.1 2328739 2329386 D Code: O; COG: COG0625; glutathione S-transferase 2328739..2329386 Shigella boydii Sb227 3781320 YP_408729.1 CDS folX NC_007613.1 2329443 2329805 D catalyzes the formation of dihydromonapterin triphosphate from dihydroneopterin triphosphate; D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase 2329443..2329805 Shigella boydii Sb227 3781321 YP_408730.1 CDS SBO_2339 NC_007613.1 2329826 2330719 D Code: R; COG: COG1090; sugar nucleotide epimerase 2329826..2330719 Shigella boydii Sb227 3781322 YP_408731.1 CDS yfcI NC_007613.1 2330767 2331309 R Code: S; COG: COG5464; hypothetical protein complement(2330767..2331309) Shigella boydii Sb227 3781323 YP_408732.1 CDS SBO_2341 NC_007613.1 2331323 2331493 R IS1 encoded protein complement(2331323..2331493) Shigella boydii Sb227 3781324 YP_408733.1 CDS insB NC_007613.1 2331586 2332089 D Code: L; COG: COG1662; IS1 ORF2 2331586..2332089 Shigella boydii Sb227 3781325 YP_408734.1 CDS hisP NC_007613.1 2332631 2333404 R Code: E; COG: COG4598; histidine/lysine/arginine/ornithine transporter subunit complement(2332631..2333404) Shigella boydii Sb227 3781326 YP_408735.1 CDS hisM NC_007613.1 2333412 2334128 R Code: E; COG: COG4160; histidine transport, membrane protein M complement(2333412..2334128) Shigella boydii Sb227 3781327 YP_408736.1 CDS hisQ NC_007613.1 2334125 2334811 R Code: E; COG: COG4215; histidine transport system permease complement(2334125..2334811) Shigella boydii Sb227 3781328 YP_408737.1 CDS hisJ NC_007613.1 2334901 2335683 R Code: ET; COG: COG0834; histidine-binding periplasmic protein of high-affinity histidine transport system complement(2334901..2335683) Shigella boydii Sb227 3781329 YP_408738.1 CDS argT NC_007613.1 2335904 2336686 R Code: ET; COG: COG0834; lysine-, arginine-, ornithine-binding periplasmic protein complement(2335904..2336686) Shigella boydii Sb227 3781330 YP_408739.1 CDS ubiX NC_007613.1 2336952 2337521 R catalyzes the formation of 2-octaprenylphenol from 3-octaprenyl-4-hydroxybenzoate; 3-octaprenyl-4-hydroxybenzoate carboxy-lyase complement(2336952..2337521) Shigella boydii Sb227 3781331 YP_408740.1 CDS purF NC_007613.1 2337616 2339133 R PRPP amidotransferase; Catalyzes first step of the de novo purine nucleotide biosynthetic pathway; amidophosphoribosyltransferase complement(2337616..2339133) Shigella boydii Sb227 3781332 YP_408741.1 CDS cvpA NC_007613.1 2339170 2339658 R membrane protein required for colicin V production; colicin V production protein complement(2339170..2339658) Shigella boydii Sb227 3781333 YP_408742.2 CDS dedD NC_007613.1 2339917 2340579 R Code: S; COG: COG3147; hypothetical protein complement(2339917..2340579) Shigella boydii Sb227 3781334 YP_408743.1 CDS folC NC_007613.1 2340569 2341837 R dihydrofolate synthetase; Code: H; COG: COG0285; bifunctional folylpolyglutamate synthase/dihydrofolate synthase complement(2340569..2341837) Shigella boydii Sb227 3781335 YP_408744.1 CDS accD NC_007613.1 2341907 2342821 R catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer of AccA2D2 subunits; acetyl-CoA carboxylase subunit beta complement(2341907..2342821) Shigella boydii Sb227 3781336 YP_408745.1 CDS dedA NC_007613.1 2342977 2343636 R Code: S; COG: COG0586; hypothetical protein complement(2342977..2343636) Shigella boydii Sb227 3781337 YP_408746.1 CDS truA NC_007613.1 2343719 2344531 R mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability; tRNA pseudouridine synthase A complement(2343719..2344531) Shigella boydii Sb227 3781338 YP_408747.1 CDS usg NC_007613.1 2344531 2345544 R Code: E; COG: COG0136; semialdehyde dehydrogenase complement(2344531..2345544) Shigella boydii Sb227 3781339 YP_408748.1 CDS pdxB NC_007613.1 2345610 2346746 R Code: HE; COG: COG0111; erythronate-4-phosphate dehydrogenase complement(2345610..2346746) Shigella boydii Sb227 3781340 YP_408749.1 CDS flk NC_007613.1 2346845 2347840 D in Salmonella typhimurium Flk regulates flagellar biosynthesis by inhibition of the flagellar-associated type III secretion system; lowers secretion levels of the anti-sigma28 factor FlgM to the periplasm; inner membrane-anchored protein; flagella biosynthesis regulator 2346845..2347840 Shigella boydii Sb227 3781341 YP_408750.1 CDS SBO_2359 NC_007613.1 2347837 2349015 R Code: GEPR; COG: COG0477; hypothetical protein complement(2347837..2349015) Shigella boydii Sb227 3781342 YP_408751.1 CDS fabB NC_007613.1 2349335 2350555 R FabB, beta-Ketoacyl-ACP synthase I, KASI; catalyzes a condensation reaction in fatty acid biosynthesis: addition of an acyl acceptor of two carbons from malonyl-ACP; required for the elongation of short-chain unsaturated acyl-ACP; 3-oxoacyl-ACP synthase complement(2349335..2350555) Shigella boydii Sb227 3781343 YP_408752.2 CDS mnmC NC_007613.1 2350714 2352720 D catalyzes the formation of 5-methylaminomethyl-2-thiouridine in position 34 of the anticodon of tRNA molecules; 5-methylaminomethyl-2-thiouridine methyltransferase 2350714..2352720 Shigella boydii Sb227 3781344 YP_408753.1 CDS SBO_2362 NC_007613.1 2352841 2353119 R hypothetical protein complement(2352841..2353119) Shigella boydii Sb227 3781345 YP_408754.1 CDS SBO_2363 NC_007613.1 2353153 2353701 R Code: S; COG: COG3101; transporting ATPase complement(2353153..2353701) Shigella boydii Sb227 3781346 YP_408755.1 CDS yfcA NC_007613.1 2353701 2354510 R Code: R; COG: COG0730; hypothetical protein complement(2353701..2354510) Shigella boydii Sb227 3781347 YP_408756.1 CDS mepA NC_007613.1 2354510 2355334 R penicillin-insensitive; D-alanyl-D-alanine endopeptidase; functions in hydrolyzing cell wall peptidoglycan; similar to LAS metallopeptidases; forms a dimer in periplasm; penicillin-insensitive murein endopeptidase complement(2354510..2355334) Shigella boydii Sb227 3781348 YP_408757.1 CDS aroC NC_007613.1 2355338 2356423 R catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis; chorismate synthase complement(2355338..2356423) Shigella boydii Sb227 3781349 YP_408758.1 CDS yfcB NC_007613.1 2356458 2357723 R involved in methylation of ribosomal protein L3; N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase complement(2356458..2357723) Shigella boydii Sb227 3781351 YP_408759.1 CDS SBO_2367 NC_007613.1 2357556 2358107 D Code: S; COG: COG2840; hypothetical protein 2357556..2358107 Shigella boydii Sb227 3781350 YP_408760.1 CDS SBO_2369 NC_007613.1 2358180 2358944 R hypothetical protein complement(2358180..2358944) Shigella boydii Sb227 3781352 YP_408761.1 CDS SBO_2370 NC_007613.1 2359008 2359373 D IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein 2359008..2359373 Shigella boydii Sb227 3781353 YP_408762.2 CDS SBO_2371 NC_007613.1 2359331 2360236 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 2359331..2360236 Shigella boydii Sb227 3781354 YP_408763.1 CDS SBO_2372 NC_007613.1 2360444 2360911 R Code: NU; COG: COG3539; fimbrial-like protein complement(2360444..2360911) Shigella boydii Sb227 3781355 YP_408764.1 CDS SBO_2373 NC_007613.1 2360908 2361396 R Code: NU; COG: COG3539; hypothetical protein complement(2360908..2361396) Shigella boydii Sb227 3781356 YP_408765.1 CDS SBO_2374 NC_007613.1 2361393 2361902 R Code: NU; COG: COG3539; fimbrial protein complement(2361393..2361902) Shigella boydii Sb227 3781357 YP_408766.1 CDS yfcS NC_007613.1 2361918 2362670 R Code: NU; COG: COG3121; chaperone complement(2361918..2362670) Shigella boydii Sb227 3781358 YP_408767.1 CDS yfcU NC_007613.1 2362690 2365332 R involved in fimbrial biogenesis; Code: NU; COG: COG3188; PapC-like porin protein complement(2362690..2365332) Shigella boydii Sb227 3781359 YP_408768.1 CDS SBO_2378 NC_007613.1 2366652 2367137 R Code: T; COG: COG2062; phosphohistidine phosphatase complement(2366652..2367137) Shigella boydii Sb227 3781361 YP_408769.1 CDS fadJ NC_007613.1 2367340 2369484 R multifunctional enoyl-CoA hydratase/3-hydroxyacyl-CoA dehydrogenase/3-hydroxybutyryl-CoA epimerase; catalyzes the formation of an hydroxyacyl-CoA by addition of water on enoyl-CoA; exhibits 3-hydroxyacyl-CoA epimerase and 3-hydroxyacyl-CoA dehydrogenase activities: forms a heterotetramer with FadI; similar to FadA2B2 complex; involved in the anaerobic degradation of long and medium-chain fatty acids in the presence of nitrate; multifunctional fatty acid oxidation complex subunit alpha complement(2367340..2369484) Shigella boydii Sb227 3781362 YP_408770.1 CDS fadI NC_007613.1 2369484 2370794 R FadI; fatty acid oxidation complex component beta; functions in a heterotetramer with FadJ; similar to FadA2B2 complex; functions in beta-oxidation of fatty acids during anaerobic growth; 3-ketoacyl-CoA thiolase complement(2369484..2370794) Shigella boydii Sb227 3781363 YP_408771.1 CDS SBO_2381 NC_007613.1 2370974 2371282 R Code: S; COG: COG3691; hypothetical protein complement(2370974..2371282) Shigella boydii Sb227 3781364 YP_408772.1 CDS fadL NC_007613.1 2371624 2372970 D sensitivity to phage T2; Code: I; COG: COG2067; long-chain fatty acid outer membrane transporter 2371624..2372970 Shigella boydii Sb227 3781365 YP_408773.1 CDS SBO_2383 NC_007613.1 2373435 2374631 D Code: L; COG: COG3547; ISSfl2 ORF 2373435..2374631 Shigella boydii Sb227 3781366 YP_408774.1 CDS insB NC_007613.1 2375506 2375682 R IS1 ORF2 complement(2375506..2375682) Shigella boydii Sb227 3781367 YP_408775.2 CDS SBO_2385 NC_007613.1 2375657 2376562 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(2375657..2376562) Shigella boydii Sb227 3781368 YP_408776.1 CDS SBO_2386 NC_007613.1 2376520 2376885 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(2376520..2376885) Shigella boydii Sb227 3781369 YP_408777.1 CDS insB NC_007613.1 2376974 2377345 R Code: L; COG: COG1662; IS1 ORF2 complement(2376974..2377345) Shigella boydii Sb227 3781370 YP_408778.1 CDS vacJ NC_007613.1 2378138 2378893 R Code: M; COG: COG2853; lipoprotein complement(2378138..2378893) Shigella boydii Sb227 3781371 YP_408779.1 CDS yfdC NC_007613.1 2379187 2380119 D Code: P; COG: COG2116; transport 2379187..2380119 Shigella boydii Sb227 3781372 YP_408780.1 CDS SBO_2391 NC_007613.1 2380676 2381197 R Code: L; COG: COG2801; IS911 ORF2 complement(2380676..2381197) Shigella boydii Sb227 3781374 YP_408781.1 CDS dsdA NC_007613.1 2381236 2382462 D deaminase; catalyzes the formation of pyruvate from serine; D-serine dehydratase 2381236..2382462 Shigella boydii Sb227 3781375 YP_408782.1 CDS emrY NC_007613.1 2382570 2384108 R Code: GEPR; COG: COG0477; multidrug resistance protein Y complement(2382570..2384108) Shigella boydii Sb227 3781376 YP_408783.1 CDS emrK NC_007613.1 2384108 2385271 R Code: V; COG: COG1566; multidrug resistance protein K complement(2384108..2385271) Shigella boydii Sb227 3781377 YP_408784.1 CDS evgA NC_007613.1 2385687 2386301 D sensor EvgS; response regulator in two-component regulatory system with EvgS; phosphorylated EvgA activates ompC, emrKY, gadABC, hdeAB and others genes; involved in acid resistance, osmotic adaption, and drug resistance; DNA-binding transcriptional activator EvgA 2385687..2386301 Shigella boydii Sb227 3781378 YP_408785.1 CDS evgS NC_007613.1 2386306 2389899 D Code: ET; COG: COG0834; hybrid sensory histidine kinase in two-component regulatory system with EvgA 2386306..2389899 Shigella boydii Sb227 3781379 YP_408786.1 CDS yfdE NC_007613.1 2389955 2391139 R Code: C; COG: COG1804; hypothetical protein complement(2389955..2391139) Shigella boydii Sb227 3781380 YP_408787.1 CDS SBO_2398 NC_007613.1 2391174 2392118 R member of the AEC family of auxin efflux transporters; unknown function; transporter YfdV complement(2391174..2392118) Shigella boydii Sb227 3781381 YP_408788.1 CDS SBO_2399 NC_007613.1 2392188 2393882 R catalyzes the formation of formyl-CoA from oxalyl-CoA; oxalyl-CoA decarboxylase complement(2392188..2393882) Shigella boydii Sb227 3781382 YP_408789.1 CDS SBO_2400 NC_007613.1 2393936 2395186 R catalyzes the formation of oxalyl-CoA from oxalate and Formyl-CoA; formyl-coenzyme A transferase complement(2393936..2395186) Shigella boydii Sb227 3781383 YP_408790.1 CDS SBO_2401 NC_007613.1 2395699 2396331 R hypothetical protein complement(2395699..2396331) Shigella boydii Sb227 3781384 YP_408791.1 CDS SBO_2402 NC_007613.1 2396627 2396902 D hypothetical protein 2396627..2396902 Shigella boydii Sb227 3781385 YP_408792.1 CDS SBO_2403 NC_007613.1 2396979 2397221 R hypothetical protein complement(2396979..2397221) Shigella boydii Sb227 3781386 YP_408793.2 CDS ddg NC_007613.1 2397574 2398494 D Acylates the intermediate (KDO)2-lipid IVA to form (KDO)2-(palmitoleoyl)-lipid IVA in cells subjected to cold shock; lipid A biosynthesis palmitoleoyl acyltransferase 2397574..2398494 Shigella boydii Sb227 3781387 YP_408794.1 CDS SBO_2405 NC_007613.1 2398986 2400224 R Code: E; COG: COG0436; aminotransferase complement(2398986..2400224) Shigella boydii Sb227 3781388 YP_408795.1 CDS SBO_2406 NC_007613.1 2400601 2402298 D Code: T; COG: COG3275; sensor protein 2400601..2402298 Shigella boydii Sb227 3781389 YP_408796.1 CDS SBO_2407 NC_007613.1 2402313 2403047 D Code: KT; COG: COG3279; 2-component transcriptional regulator 2402313..2403047 Shigella boydii Sb227 3781390 YP_408797.1 CDS SBO_2408 NC_007613.1 2403060 2403917 D Code: K; COG: COG2207; ARAC-type regulatory protein 2403060..2403917 Shigella boydii Sb227 3781391 YP_408798.1 CDS SBO_2409 NC_007613.1 2403920 2406415 R Code: G; COG: COG1080; PTS system transporter subunit IIA, transporter subunit I complement(2403920..2406415) Shigella boydii Sb227 3781392 YP_408799.1 CDS SBO_2410 NC_007613.1 2406440 2407477 R metalloprotein; exoaminopeptidase complement(2406440..2407477) Shigella boydii Sb227 3781393 YP_408800.1 CDS SBO_2411 NC_007613.1 2407477 2408562 R Xaa-Pro aminopeptidase; limited methionine aminopeptidase; aminopeptidase complement(2407477..2408562) Shigella boydii Sb227 3781394 YP_408801.1 CDS SBO_2412 NC_007613.1 2408577 2409824 R Code: G; COG: COG1299; transporter complement(2408577..2409824) Shigella boydii Sb227 3781395 YP_408802.1 CDS SBO_2413 NC_007613.1 2409846 2410172 R Code: G; COG: COG1445; PTS system transporter subunit IIB complement(2409846..2410172) Shigella boydii Sb227 3781396 YP_408803.1 CDS glk NC_007613.1 2410391 2411356 R catalyzes the conversion of ATP and D-glucose to ADP and D-glucose 6-phosphate; glucokinase complement(2410391..2411356) Shigella boydii Sb227 3781397 YP_408804.1 CDS SBO_2415 NC_007613.1 2411560 2412816 D Code: P; COG: COG0038; hypothetical protein 2411560..2412816 Shigella boydii Sb227 3781398 YP_408805.1 CDS SBO_2416 NC_007613.1 2412931 2413257 D hypothetical protein 2412931..2413257 Shigella boydii Sb227 3781399 YP_408806.1 CDS SBO_2417 NC_007613.1 2413398 2414636 R Code: P; COG: COG1914; manganese transport protein MntH complement(2413398..2414636) Shigella boydii Sb227 3781400 YP_408807.1 CDS nupC NC_007613.1 2414972 2416174 D Code: F; COG: COG1972; permease of transport system for 3 nucleosides 2414972..2416174 Shigella boydii Sb227 3781401 YP_408808.1 CDS SBO_2419 NC_007613.1 2416207 2416644 R IS4 orf complement(2416207..2416644) Shigella boydii Sb227 3781402 YP_408809.1 CDS SBO_2420 NC_007613.1 2416765 2417568 R Code: L; COG: COG3385; IS4 orf complement(2416765..2417568) Shigella boydii Sb227 3781403 YP_408810.1 CDS yfeA NC_007613.1 2417664 2419970 R Code: T; COG: COG2200; hypothetical protein complement(2417664..2419970) Shigella boydii Sb227 3781404 YP_408811.1 CDS yfeC NC_007613.1 2420473 2420832 D hypothetical protein 2420473..2420832 Shigella boydii Sb227 3781407 YP_408812.1 CDS yfeD NC_007613.1 2420834 2421226 D hypothetical protein 2420834..2421226 Shigella boydii Sb227 3781408 YP_408813.1 CDS gltX NC_007613.1 2421277 2422692 R Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation; glutamyl-tRNA synthetase complement(2421277..2422692) Shigella boydii Sb227 3781409 YP_408814.1 CDS flxA NC_007613.1 2423467 2423808 D hypothetical protein 2423467..2423808 Shigella boydii Sb227 3781414 YP_408815.1 CDS yfeR NC_007613.1 2423799 2424725 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(2423799..2424725) Shigella boydii Sb227 3781415 YP_408816.1 CDS yfeH NC_007613.1 2424815 2425813 D Code: R; COG: COG0385; cytochrome oxidase 2424815..2425813 Shigella boydii Sb227 3781416 YP_408817.1 CDS ypeB NC_007613.1 2425810 2426028 R Code: S; COG: COG3530; hypothetical protein complement(2425810..2426028) Shigella boydii Sb227 3781417 YP_408818.1 CDS ligA NC_007613.1 2426030 2428045 R this protein catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction; essential for DNA replication and repair of damaged DNA; similar to ligase LigB; NAD-dependent DNA ligase LigA complement(2426030..2428045) Shigella boydii Sb227 3781418 YP_408819.1 CDS zipA NC_007613.1 2428116 2429102 R interacts with cell division protein FitsZ and may be required to anchor septal ring structure; cell division protein ZipA complement(2428116..2429102) Shigella boydii Sb227 3781419 YP_408820.1 CDS cysZ NC_007613.1 2429332 2430093 D required for sulfate transport; role in sulfur assimilation; sulfate transport protein CysZ 2429332..2430093 Shigella boydii Sb227 3781420 YP_408821.1 CDS cysK NC_007613.1 2430278 2431249 D O-acetylserine sulfhydrolase A; CysK; forms a complex with serine acetyltransferase CysE; functions in cysteine biosynthesis; cysteine synthase A 2430278..2431249 Shigella boydii Sb227 3781421 YP_408822.1 CDS ptsH NC_007613.1 2431633 2431890 D Code: G; COG: COG1925; PTS system phosphohistidinoprotein-hexose phosphotransferase Hpr 2431633..2431890 Shigella boydii Sb227 3781422 YP_408823.1 CDS ptsI NC_007613.1 2431935 2433662 D Phosphotransferase system, enzyme I; transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein; part of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS), a major carbohydrate active-transport system; phosphoenolpyruvate-protein phosphotransferase 2431935..2433662 Shigella boydii Sb227 3781423 YP_408824.1 CDS crr NC_007613.1 2433703 2434212 D functions in phosphoenolpyruvate-(PEP)-dependent phosphotransferase (PTS) system; functions in the transport and phosphorylation of glucose; PTS system glucose-specific transporter 2433703..2434212 Shigella boydii Sb227 3781424 YP_408825.1 CDS SBO_2442 NC_007613.1 2434260 2434898 R IS4 orf complement(2434260..2434898) Shigella boydii Sb227 3781425 YP_408826.1 CDS SBO_2443 NC_007613.1 2435017 2435607 R IS4 orf complement(2435017..2435607) Shigella boydii Sb227 3781426 YP_408827.1 CDS yfeK NC_007613.1 2436650 2437018 D hypothetical protein 2436650..2437018 Shigella boydii Sb227 3781428 YP_408828.1 CDS cysM NC_007613.1 2437021 2437932 R O-acetylserine sulfhydrolase B; catalyzes the formation of cysteine from 3-O-acetyl-L-serine and hydrogen sulfide; cysteine synthase B complement(2437021..2437932) Shigella boydii Sb227 3781429 YP_408829.1 CDS cysA NC_007613.1 2438066 2439163 R chromate resistance; Code: P; COG: COG1118; sulfate/thiosulfate transporter subunit complement(2438066..2439163) Shigella boydii Sb227 3781430 YP_408830.1 CDS cysW NC_007613.1 2439153 2440028 R Part of the ABC transporter complex cysAWTP involved in sulfate/thiosulfate import; sulfate/thiosulfate transporter permease subunit complement(2439153..2440028) Shigella boydii Sb227 3781431 YP_408831.1 CDS cysU NC_007613.1 2440028 2440861 R Code: O; COG: COG0555; sulfate/thiosulfate transporter subunit complement(2440028..2440861) Shigella boydii Sb227 3781432 YP_408832.1 CDS cysP NC_007613.1 2440861 2441877 R Code: P; COG: COG4150; thiosulfate transporter subunit complement(2440861..2441877) Shigella boydii Sb227 3781433 YP_408833.2 CDS ucpA NC_007613.1 2442181 2442972 R Code: IQR; COG: COG1028; short chain dehydrogenase complement(2442181..2442972) Shigella boydii Sb227 3781434 YP_408834.1 CDS yfeT NC_007613.1 2443101 2443958 R Code: K; COG: COG1737; hypothetical protein complement(2443101..2443958) Shigella boydii Sb227 3781435 YP_408835.1 CDS murQ NC_007613.1 2444122 2445018 D catalyzes the cleavage of the lactyl ether moiety of N-acetylmuramic acid-6-phosphate (MurNAc-6-P) to form N-acetylglucosamine-6-phosphate (GlcNAc-6-P) and lactate; involved in MurNAc dissimilation pathway; N-acetylmuramic acid 6-phosphate etherase 2444122..2445018 Shigella boydii Sb227 3781436 YP_408836.1 CDS murP NC_007613.1 2445022 2446446 D belongs to PEP-dependent PTS system; contains the PTS EIIBC domains; involved in uptake of exogenous N-acetylmuramic acid (MurNAc); requires crr-encoded enzyme IIA-glucose component; PTS system N-acetylmuramic acid transporter subunit IIBC 2445022..2446446 Shigella boydii Sb227 3781437 YP_408837.1 CDS SBO_2456 NC_007613.1 2447813 2448739 R Code: P; COG: COG2837; hypothetical protein complement(2447813..2448739) Shigella boydii Sb227 3781439 YP_408838.1 CDS SBO_2457 NC_007613.1 2448808 2449383 R hypothetical protein complement(2448808..2449383) Shigella boydii Sb227 3781440 YP_408839.1 CDS SBO_2458 NC_007613.1 2449590 2450045 R hypothetical protein complement(2449590..2450045) Shigella boydii Sb227 3781441 YP_408840.2 CDS SBO_2459 NC_007613.1 2450026 2450451 R Code: R; COG: COG0456; acetyltransferase complement(2450026..2450451) Shigella boydii Sb227 3781442 YP_408841.1 CDS amiA NC_007613.1 2450665 2451534 D Code: M; COG: COG0860; N-acetylmuramoyl-l-alanine amidase I 2450665..2451534 Shigella boydii Sb227 3781443 YP_408842.1 CDS hemF NC_007613.1 2451538 2452437 D catalyzes the conversion of the propionic acid groups of rings I and III to vinyl groups during heme synthesis; coproporphyrinogen III oxidase 2451538..2452437 Shigella boydii Sb227 3781444 YP_408843.1 CDS yfeG NC_007613.1 2452443 2453495 R activates the transcription of the ethanolamine utilization operon; transcriptional regulator EutR complement(2452443..2453495) Shigella boydii Sb227 3781445 YP_408844.1 CDS SBO_2463 NC_007613.1 2453541 2454047 R Code: QC; COG: COG4577; hypothetical protein complement(2453541..2454047) Shigella boydii Sb227 3781446 YP_408845.1 CDS SBO_2464 NC_007613.1 2454054 2454713 R Code: E; COG: COG4816; hypothetical protein complement(2454054..2454713) Shigella boydii Sb227 3781447 YP_408846.1 CDS eutC NC_007613.1 2454723 2455499 R catalyzes the formation of acetaldehyde from ethanolamine; ethanolamine ammonia-lyase small subunit complement(2454723..2455499) Shigella boydii Sb227 3781448 YP_408847.1 CDS insB NC_007613.1 2455575 2456078 R Code: L; COG: COG1662; IS1 ORF2 complement(2455575..2456078) Shigella boydii Sb227 3781449 YP_408848.1 CDS SBO_2467 NC_007613.1 2456153 2456389 D IS1 encoded protein 2456153..2456389 Shigella boydii Sb227 3781450 YP_408849.1 CDS eutB NC_007613.1 2456408 2458030 R Code: E; COG: COG4303; ethanolamine ammonia-lyase heavy subunit complement(2456408..2458030) Shigella boydii Sb227 3781451 YP_408850.1 CDS eutJ NC_007613.1 2458020 2458856 R similar to Salmonella protein; Code: E; COG: COG4820; ethanolamine utilization complement(2458020..2458856) Shigella boydii Sb227 3781452 YP_408851.1 CDS eutE NC_007613.1 2458867 2460270 R similar to acetaldehyde dehydrogenase; Code: C; COG: COG1012; ethanolamine utilization complement(2458867..2460270) Shigella boydii Sb227 3781453 YP_408852.1 CDS cchB NC_007613.1 2460282 2460569 R Code: QC; COG: COG4576; detox protein complement(2460282..2460569) Shigella boydii Sb227 3781454 YP_408853.2 CDS cchA NC_007613.1 2460676 2460969 R Code: QC; COG: COG4577; detox protein complement(2460676..2460969) Shigella boydii Sb227 3781455 YP_408854.1 CDS eutD NC_007613.1 2461008 2462024 R similar to Salmonella acetyl/butyryl P transferase; in Salmonella this enzyme is required for ethanolamine catabolism; has higher affinity for CoA than Pta; phosphotransacetylase complement(2461008..2462024) Shigella boydii Sb227 3781456 YP_408855.1 CDS SBO_2474 NC_007613.1 2462014 2462823 R Code: E; COG: COG4812; hypothetical protein complement(2462014..2462823) Shigella boydii Sb227 3781457 YP_408856.1 CDS SBO_2475 NC_007613.1 2462820 2463521 R Code: E; COG: COG4766; hypothetical protein complement(2462820..2463521) Shigella boydii Sb227 3781458 YP_408857.1 CDS SBO_2476 NC_007613.1 2463496 2463975 R Code: E; COG: COG4917; hypothetical protein complement(2463496..2463975) Shigella boydii Sb227 3781459 YP_408858.1 CDS SBO_2477 NC_007613.1 2463988 2464395 R Code: E; COG: COG4810; hypothetical protein complement(2463988..2464395) Shigella boydii Sb227 3781460 YP_408859.1 CDS SBO_2478 NC_007613.1 2464615 2466894 R NADP-dependent; catalyzes the oxidative decarboxylation of malate to form pyruvate; decarboxylates oxaloacetate; malic enzyme complement(2464615..2466894) Shigella boydii Sb227 3781461 YP_408860.1 CDS SBO_2481 NC_007613.1 2469554 2470642 R Code: L; COG: COG3547; transposase complement(2469554..2470642) Shigella boydii Sb227 3781464 YP_408861.1 CDS SBO_2482 NC_007613.1 2471784 2472827 R hypothetical protein complement(2471784..2472827) Shigella boydii Sb227 3781465 YP_408862.1 CDS yffH NC_007613.1 2472953 2473528 R Code: LR; COG: COG0494; hypothetical protein complement(2472953..2473528) Shigella boydii Sb227 3781466 YP_408863.1 CDS yffG NC_007613.1 2473596 2475575 R unknown function; in E. coli the aegA gene is regulated by Fnr, NarXL, and NarQ (but not ArcA), induced under anaerobic conditions and repressed in the presence of nitrate (anaerobic); oxidoreductase Fe-S binding subunit complement(2473596..2475575) Shigella boydii Sb227 3781467 YP_408864.1 CDS narQ NC_007613.1 2475781 2477481 D protein histidine kinase (acts on NarP and narL); Code: T; COG: COG3850; nitrate/nitrite sensor protein NarQ 2475781..2477481 Shigella boydii Sb227 3781468 YP_408865.1 CDS yffB NC_007613.1 2481291 2481647 D Code: P; COG: COG1393; hypothetical protein 2481291..2481647 Shigella boydii Sb227 3781470 YP_408866.1 CDS dapE NC_007613.1 2481651 2482778 D dapE-encoded N-succinyl-L,L-diaminopimelic acid desuccinylase (DapE), catalyzes the hydrolysis of N-succinyl-L,Ldiaminopimelate L,L-SDAP to L,L-diaminopimelate and succinate. It is a metalloprotease containing dinuclear active sites. Its structure is similar to the carboxypeptidase G2 from Pseudomonas sp. strain RS-16 and the aminopeptidase from Aeromonas proteolytica.; succinyl-diaminopimelate desuccinylase 2481651..2482778 Shigella boydii Sb227 3781471 YP_408867.2 CDS SBO_2489 NC_007613.1 2482806 2483006 D hypothetical protein 2482806..2483006 Shigella boydii Sb227 3781472 YP_408868.2 CDS ypfH NC_007613.1 2483116 2483814 R Displays esterase activity toward palmitoyl-CoA and pNP-butyrate; esterase YpfH complement(2483116..2483814) Shigella boydii Sb227 3781473 YP_408869.1 CDS ypfI NC_007613.1 2483888 2485903 R Code: R; COG: COG1444; hypothetical protein complement(2483888..2485903) Shigella boydii Sb227 3781474 YP_408870.1 CDS SBO_2492 NC_007613.1 2485918 2486781 R Code: R; COG: COG2321; hypothetical protein complement(2485918..2486781) Shigella boydii Sb227 3781475 YP_408871.1 CDS purC NC_007613.1 2486949 2487662 R SAICAR synthetase; catalyzes the formation of (S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4- carboxamido)succinate from 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxylate and L-aspartate in purine biosynthesis; SAICAR synthase; phosphoribosylaminoimidazolesuccinocarboxamide synthase complement(2486949..2487662) Shigella boydii Sb227 3781476 YP_408872.1 CDS nlpB NC_007613.1 2487875 2488912 R Code: M; COG: COG3317; lipoprotein complement(2487875..2488912) Shigella boydii Sb227 3781477 YP_408873.1 CDS dapA NC_007613.1 2488926 2489804 R catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis; dihydrodipicolinate synthase complement(2488926..2489804) Shigella boydii Sb227 3781478 YP_408874.2 CDS gcvR NC_007613.1 2489950 2490522 D transcriptional regulation of gcv operon; negative transcriptional regulator of the gcvTHP operon; glycine cleavage system transcriptional repressor 2489950..2490522 Shigella boydii Sb227 3781479 YP_408875.1 CDS bcp NC_007613.1 2490522 2490992 D bacterioferritin comigratory protein; thiol peroxidase; thioredoxin-dependent; hydroperoxide peroxidase; in Escherichia coli this enzyme preferentially reduces linoleic acid hydroperoxide; contains an active site cysteine; thioredoxin-dependent thiol peroxidase 2490522..2490992 Shigella boydii Sb227 3781480 YP_408876.1 CDS SBO_2498 NC_007613.1 2492132 2492482 D Code: L; COG: COG3436; protein encoded within IS 2492132..2492482 Shigella boydii Sb227 3781481 YP_408877.1 CDS SBO_2499 NC_007613.1 2492702 2494105 D Code: L; COG: COG3436; protein encoded within IS 2492702..2494105 Shigella boydii Sb227 3781482 YP_408878.1 CDS SBO_2500 NC_007613.1 2494109 2494846 R Code: L; COG: COG2801; IS600 ORF2 complement(2494109..2494846) Shigella boydii Sb227 3781483 YP_408879.1 CDS SBO_2501 NC_007613.1 2494882 2495184 R Code: L; COG: COG2963; IS600 ORF1 complement(2494882..2495184) Shigella boydii Sb227 3781484 YP_408880.1 CDS hyfC NC_007613.1 2497650 2498618 D Code: C; COG: COG0650; hydrogenase 4 membrane subunit 2497650..2498618 Shigella boydii Sb227 3781487 YP_408881.1 CDS hyfE NC_007613.1 2499876 2500526 D interacts with formate dehydrogenase to produce an active formate hydrogenlyase complex which cleaves formate to dihydrogen and carbon dioxide; hydrogenase 4 membrane subunit 2499876..2500526 Shigella boydii Sb227 3781489 YP_408882.1 CDS hyfF NC_007613.1 2500531 2502111 D Code: CP; COG: COG0651; hydrogenase 4 subunit F 2500531..2502111 Shigella boydii Sb227 3781490 YP_408883.1 CDS hyfG NC_007613.1 2502101 2503816 D Code: C; COG: COG3261; hydrogenase 4 subunit 2502101..2503816 Shigella boydii Sb227 3781491 YP_408884.1 CDS hyfH NC_007613.1 2503826 2504365 D probable electron transfer protein for hydrogenase 4; hydrogenase 4 is believed to be silent in E. coli under conditions tested so far; hydrogenase 4 subunit H 2503826..2504365 Shigella boydii Sb227 3781492 YP_408885.1 CDS hyfI NC_007613.1 2504362 2505120 D Code: C; COG: COG3260; hydrogenase 4 Fe-S subunit 2504362..2505120 Shigella boydii Sb227 3781493 YP_408886.1 CDS SBO_2511 NC_007613.1 2505050 2505526 D protein processing element 2505050..2505526 Shigella boydii Sb227 3781494 YP_408887.1 CDS perM NC_007613.1 2508473 2509534 R Code: R; COG: COG0628; permease complement(2508473..2509534) Shigella boydii Sb227 3781497 YP_408888.1 CDS SBO_2515 NC_007613.1 2509747 2511210 D Code: R; COG: COG4783; hypothetical protein 2509747..2511210 Shigella boydii Sb227 3781498 YP_408889.1 CDS SBO_2516 NC_007613.1 2511231 2511590 D Code: P; COG: COG1393; oxidoreductase 2511231..2511590 Shigella boydii Sb227 3781499 YP_408890.1 CDS SBO_2517 NC_007613.1 2511728 2512474 R controls initiation of DNA replication by inhibiting re-initiation of replication, promotes hydrolysis of DnaA-bound ATP; DNA replication initiation factor complement(2511728..2512474) Shigella boydii Sb227 3781500 YP_408891.1 CDS uraA NC_007613.1 2512524 2513813 R Code: F; COG: COG2233; uracil transporter complement(2512524..2513813) Shigella boydii Sb227 3781501 YP_408892.2 CDS upp NC_007613.1 2513899 2514525 R Catalyzes the formation of uracil and 5-phospho-alpha-D-ribosy 1-diphosphate from UMP and diphosphate; uracil phosphoribosyltransferase complement(2513899..2514525) Shigella boydii Sb227 3781502 YP_408893.1 CDS purM NC_007613.1 2514849 2515886 D AIR synthetase; catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis; phosphoribosylaminoimidazole synthetase 2514849..2515886 Shigella boydii Sb227 3781503 YP_408894.1 CDS purN NC_007613.1 2515886 2516524 D glycinamide ribonucleotide transformylase; GAR Tfase; catalyzes the synthesis of 5'-phosphoribosylformylglycinamide from 5'-phosphoribosylglycinamide and 10-formyltetrahydrofolate; PurN requires formyl folate for the reaction unlike PurT which uses formate; phosphoribosylglycinamide formyltransferase 2515886..2516524 Shigella boydii Sb227 3781504 YP_408895.1 CDS ppk NC_007613.1 2516696 2518762 D catalyzes the reversible transfer of the terminal phosphate of ATP to form a long chain polyphosphate; polyphosphate kinase 2516696..2518762 Shigella boydii Sb227 3781505 YP_408896.1 CDS ppx NC_007613.1 2518767 2520308 D Code: FP; COG: COG0248; exopolyphosphatase 2518767..2520308 Shigella boydii Sb227 3781506 YP_408897.1 CDS SBO_2524 NC_007613.1 2520775 2521614 D Code: L; COG: COG2801; IS911 ORF2 2520775..2521614 Shigella boydii Sb227 3781507 YP_408898.1 CDS SBO_2525 NC_007613.1 2523621 2524508 R Code: L; COG: COG2801; IS629 ORF2 complement(2523621..2524508) Shigella boydii Sb227 3781508 YP_408899.1 CDS SBO_2526 NC_007613.1 2524508 2524783 R Code: L; COG: COG2963; IS629 ORF1 complement(2524508..2524783) Shigella boydii Sb227 3781509 YP_408900.1 CDS insB NC_007613.1 2525190 2525693 R Code: L; COG: COG1662; IS1 ORF2 complement(2525190..2525693) Shigella boydii Sb227 3781511 YP_408901.1 CDS SBO_2529 NC_007613.1 2525786 2526031 D IS1 encoded protein 2525786..2526031 Shigella boydii Sb227 3781512 YP_408902.1 CDS SBO_2530 NC_007613.1 2526047 2526586 D hypothetical protein 2526047..2526586 Shigella boydii Sb227 3781513 YP_408903.1 CDS guaA NC_007613.1 2526681 2528258 R glutamine-hydrolyzing; contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway; GMP synthase complement(2526681..2528258) Shigella boydii Sb227 3781514 YP_408904.1 CDS guaB NC_007613.1 2528327 2529793 R catalyzes the synthesis of xanthosine monophosphate by the NAD+ dependent oxidation of inosine monophosphate; inosine 5'-monophosphate dehydrogenase complement(2528327..2529793) Shigella boydii Sb227 3781515 YP_408905.1 CDS xseA NC_007613.1 2529955 2531325 D bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides; exodeoxyribonuclease VII large subunit 2529955..2531325 Shigella boydii Sb227 3781516 YP_408906.1 CDS SBO_2534 NC_007613.1 2531322 2531573 R hypothetical protein complement(2531322..2531573) Shigella boydii Sb227 3781517 YP_408907.2 CDS engA NC_007613.1 2531606 2533078 R EngA; essential Neisserial GTPase; synchronizes cellular events by interacting with multiple targets with tandem G-domains; overexpression in Escherichia coli suppresses rrmJ mutation; structural analysis of the Thermotoga maritima ortholog shows different nucleotide binding affinities in the two binding domains; GTP-binding protein EngA complement(2531606..2533078) Shigella boydii Sb227 3781518 YP_408908.1 CDS SBO_2536 NC_007613.1 2533196 2534374 R with YaeT, YfiO, and NlpB forms a complex involved in outer membrane protein biogenesis; outer membrane protein assembly complex subunit YfgL complement(2533196..2534374) Shigella boydii Sb227 3781519 YP_408909.1 CDS SBO_2537 NC_007613.1 2534385 2535005 R Code: S; COG: COG2976; hypothetical protein complement(2534385..2535005) Shigella boydii Sb227 3781520 YP_408910.1 CDS hisS NC_007613.1 2535023 2536297 R catalyzes a two-step reaction, first charging a histidine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class II aminoacyl-tRNA synthetase; forms homodimers; some organisms have a paralogous gene, hisZ, that is similar to hisS and produces a protein that performs the first step in histidine biosynthesis along with HisG; histidyl-tRNA synthetase complement(2535023..2536297) Shigella boydii Sb227 3781521 YP_408911.1 CDS ispG NC_007613.1 2536408 2537526 R catalyzes the conversion of 2C-methyl-D-erythritol 2,4-cyclodiphosphate into 4-hydroxy-3-methyl-2-en-1-yl diphosphate; involved in isoprenoid synthesis; 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase complement(2536408..2537526) Shigella boydii Sb227 3781522 YP_408912.1 CDS yfgA NC_007613.1 2537553 2538566 R Code: S; COG: COG1426; cytoskeletal protein RodZ complement(2537553..2538566) Shigella boydii Sb227 3781523 YP_408913.1 CDS yfgB NC_007613.1 2538851 2540005 R 23S rRNA m2A2503 methyltransferase; methylates the C2 position of the A2530 nucleotide in 23S rRNA; may be involved in antibiotic resistance; ribosomal RNA large subunit methyltransferase N complement(2538851..2540005) Shigella boydii Sb227 3781524 YP_408914.1 CDS ndk NC_007613.1 2540155 2540586 R catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate; nucleoside diphosphate kinase complement(2540155..2540586) Shigella boydii Sb227 3781525 YP_408915.1 CDS pbpC NC_007613.1 2540735 2543047 R penicillin-insensitive transglycosylase/transpeptidase; penicillin-binding protein 1C complement(2540735..2543047) Shigella boydii Sb227 3781526 YP_408916.1 CDS SBO_2544 NC_007613.1 2543048 2548009 R Code: R; COG: COG2373; hypothetical protein complement(2543048..2548009) Shigella boydii Sb227 3781527 YP_408917.2 CDS sseA NC_007613.1 2548209 2549054 D catalyzes the transfer of a sulfur ion to cyanide or to other thiol compounds; 3-mercaptopyruvate sulfurtransferase 2548209..2549054 Shigella boydii Sb227 3781528 YP_408918.2 CDS sseB NC_007613.1 2549547 2550323 R enhances serine sensitivity caused by inhibition of homoserine dehydrogenase I; enhanced serine sensitivity protein SseB complement(2549547..2550323) Shigella boydii Sb227 3781529 YP_408919.2 CDS pepB NC_007613.1 2550465 2551748 R catalyzes the removal of an N-terminal amino acid from a peptide or arylamide; aminopeptidase B complement(2550465..2551748) Shigella boydii Sb227 3781530 YP_408920.1 CDS yfhJ NC_007613.1 2551926 2552126 R Code: S; COG: COG2975; hypothetical protein complement(2551926..2552126) Shigella boydii Sb227 3781531 YP_408921.1 CDS fdx NC_007613.1 2552138 2552473 R Code: C; COG: COG0633; [2FE-2S] ferredoxin, electron carrer protein complement(2552138..2552473) Shigella boydii Sb227 3781532 YP_408922.1 CDS hscA NC_007613.1 2552475 2554325 R heat shock protein, chaperone, member of Hsp70 protein family; involved in the maturation of iron-sulfur cluster-containing proteins; chaperone protein HscA complement(2552475..2554325) Shigella boydii Sb227 3781533 YP_408923.1 CDS hscB NC_007613.1 2554342 2554857 R J-type co-chaperone that regulates the ATPase and peptide-binding activity of Hsc66 chaperone; may function in biogenesis of iron-sulfur proteins; co-chaperone HscB complement(2554342..2554857) Shigella boydii Sb227 3781534 YP_408924.1 CDS iscA NC_007613.1 2554953 2555276 R forms iron-sulfur clusters of ferredoxin [2FE-2S]; binds iron in the presence of the thioredoxin reductase system; forms homodimers and tetramers; similar to SufA protein; iron-sulfur cluster assembly protein complement(2554953..2555276) Shigella boydii Sb227 3781535 YP_408925.1 CDS SBO_2553 NC_007613.1 2555293 2555679 R Code: C; COG: COG0822; scaffold protein complement(2555293..2555679) Shigella boydii Sb227 3781536 YP_408926.1 CDS yfhO NC_007613.1 2555707 2556945 R catalyzes the removal of elemental sulfur from cysteine to produce alanine; involved in NAD biosynthesis; cysteine desulfurase complement(2555707..2556945) Shigella boydii Sb227 3781537 YP_408927.1 CDS SBO_2555 NC_007613.1 2557033 2557521 R regulates the expression of the iscRSUA operon; DNA-binding transcriptional regulator IscR complement(2557033..2557521) Shigella boydii Sb227 3781538 YP_408928.1 CDS SBO_2556 NC_007613.1 2557791 2558531 R Code: J; COG: COG0565; ATP synthase subunit beta complement(2557791..2558531) Shigella boydii Sb227 3781539 YP_408929.1 CDS suhB NC_007613.1 2558650 2559453 D enhances synthesis of sigma32 in mutant; extragenic suppressor, may modulate RNAse III lethal action; Code: G; COG: COG0483; inositol monophosphatase 2558650..2559453 Shigella boydii Sb227 3781540 YP_408930.1 CDS SBO_2558 NC_007613.1 2559571 2560452 D Code: R; COG: COG1073; hypothetical protein 2559571..2560452 Shigella boydii Sb227 3781541 YP_408931.2 CDS csiE NC_007613.1 2560643 2561923 D Code: K; COG: COG3711; stationary phase inducible protein CsiE 2560643..2561923 Shigella boydii Sb227 3781542 YP_408932.1 CDS hcaT NC_007613.1 2561915 2563054 R major facilitator superfamily transporter; transporter of 3-phenylpropionate across the inner membrane; member of the major facilitator superfamily of transporters; 3-phenylpropionic acid transporter complement(2561915..2563054) Shigella boydii Sb227 3781543 YP_408933.1 CDS hcaR NC_007613.1 2563214 2564104 R activator of 3-phenylpropionic acid catabolism; DNA-binding transcriptional regulator HcaR complement(2563214..2564104) Shigella boydii Sb227 3781544 YP_408934.1 CDS hcaA1 NC_007613.1 2564240 2565601 D Code: PR; COG: COG4638; large terminal subunit of phenylpropionate dioxygenase 2564240..2565601 Shigella boydii Sb227 3781545 YP_408935.1 CDS hcaA2 NC_007613.1 2565598 2566116 D Code: Q; COG: COG5517; 3-phenylpropionate dioxygenase subunit beta 2565598..2566116 Shigella boydii Sb227 3781546 YP_408936.1 CDS hcaC NC_007613.1 2566116 2566436 D Code: PR; COG: COG2146; 3-phenylpropionate dioxygenase ferredoxin subunit 2566116..2566436 Shigella boydii Sb227 3781547 YP_408937.1 CDS hcaB NC_007613.1 2566433 2567245 D Converts cis-3-(3-carboxyethyl)-3,5-cyclohexadiene-1,2-diol (PP-dihydrodiol) into 3-(2,3-dihydroxylphenyl)propionate; 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase 2566433..2567245 Shigella boydii Sb227 3781548 YP_408938.1 CDS SBO_2567 NC_007613.1 2568343 2568645 D Code: L; COG: COG2963; IS600 ORF1 2568343..2568645 Shigella boydii Sb227 3781550 YP_408939.1 CDS SBO_2568 NC_007613.1 2568786 2569499 D Code: L; COG: COG2801; IS600 ORF2 2568786..2569499 Shigella boydii Sb227 3781551 YP_408940.1 CDS yphA NC_007613.1 2569786 2570253 D Code: S; COG: COG2259; hypothetical protein 2569786..2570253 Shigella boydii Sb227 3781552 YP_408941.1 CDS yphB NC_007613.1 2570301 2571173 R Code: G; COG: COG2017; hypothetical protein complement(2570301..2571173) Shigella boydii Sb227 3781553 YP_408942.1 CDS yphC NC_007613.1 2571185 2572279 R Code: ER; COG: COG1063; oxidoreductase complement(2571185..2572279) Shigella boydii Sb227 3781554 YP_408943.1 CDS yphD NC_007613.1 2572312 2573310 R Code: G; COG: COG1172; transport system permease complement(2572312..2573310) Shigella boydii Sb227 3781555 YP_408944.1 CDS yphE NC_007613.1 2573335 2574846 R Code: G; COG: COG1129; ABC transporter ATP-binding protein complement(2573335..2574846) Shigella boydii Sb227 3781556 YP_408945.1 CDS yphF NC_007613.1 2574869 2575714 R Code: G; COG: COG1879; LACI-type transcriptional regulator complement(2574869..2575714) Shigella boydii Sb227 3781557 YP_408946.1 CDS insB NC_007613.1 2575901 2576404 R Code: L; COG: COG1662; IS1 ORF2 complement(2575901..2576404) Shigella boydii Sb227 3781558 YP_408947.1 CDS SBO_2576 NC_007613.1 2576479 2576691 D IS1 encoded protein 2576479..2576691 Shigella boydii Sb227 3781559 YP_408948.1 CDS yphG NC_007613.1 2576675 2580049 R hypothetical protein complement(2576675..2580049) Shigella boydii Sb227 3781560 YP_408949.1 CDS yphH NC_007613.1 2580068 2581267 D Code: KG; COG: COG1940; NAGC-like transcriptional regulator 2580068..2581267 Shigella boydii Sb227 3781561 YP_408950.1 CDS glyA NC_007613.1 2581331 2582584 R catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate; serine hydroxymethyltransferase complement(2581331..2582584) Shigella boydii Sb227 3781562 YP_408951.1 CDS hmpA NC_007613.1 2582912 2584102 D ferrisiderophore reductase activity; flavohemoprotein; catalyzes the formation of nitrate from nitric oxide; can also catalyze the reduction of dihydropteridine; nitric oxide dioxygenase 2582912..2584102 Shigella boydii Sb227 3781563 YP_408952.1 CDS glnB NC_007613.1 2584147 2584485 R indirectly regulates nitrogen metabolism; at high nitrogen levels P-II prevents the phosphorylation of NR-I, the transcriptional activator of the glutamine synthetase gene (glnA); at low nitrogen levels P-II is uridylylated to form PII-UMP and interacts with an adenylyltransferase (GlnE) that activates GlnA; nitrogen regulatory protein P-II 1 complement(2584147..2584485) Shigella boydii Sb227 3781564 YP_408953.1 CDS yfhA NC_007613.1 2584546 2585880 R Code: T; COG: COG2204; 2-component transcriptional regulator complement(2584546..2585880) Shigella boydii Sb227 3781565 YP_408954.1 CDS yfhG NC_007613.1 2585870 2586583 R hypothetical protein complement(2585870..2586583) Shigella boydii Sb227 3781566 YP_408955.1 CDS yfhK NC_007613.1 2586748 2588238 R Code: T; COG: COG0642; 2-component sensor protein complement(2586748..2588238) Shigella boydii Sb227 3781567 YP_408956.1 CDS purL NC_007613.1 2588733 2592620 R FGAM synthetase; catalyzes the formation of 2-(formamido)-N1-(5-phospho-D-ribosyl)acetamidine from N2-formyl-N1-(5-phospho-D-ribosyl)glycinamide and L-glutamine in purine biosynthesis; phosphoribosylformylglycinamidine synthase complement(2588733..2592620) Shigella boydii Sb227 3781568 YP_408957.1 CDS yfhD NC_007613.1 2593018 2594436 D YfhD; uncharacterized member of the transglycosylase slt family; part of the rob operon, which plays a role in cellular resistance to antibiotics, bactericidal agents, and organic solvents; unknown function; transglycosylase 2593018..2594436 Shigella boydii Sb227 3781569 YP_408958.1 CDS yfhC NC_007613.1 2594433 2594969 R Code: FJ; COG: COG0590; tRNA-specific adenosine deaminase complement(2594433..2594969) Shigella boydii Sb227 3781570 YP_408959.2 CDS yfhB NC_007613.1 2594994 2595629 R Code: E; COG: COG0560; hypothetical protein complement(2594994..2595629) Shigella boydii Sb227 3781571 YP_408960.2 CDS yfhH NC_007613.1 2595838 2596686 D Code: K; COG: COG1737; DNA-binding transcriptional regulator 2595838..2596686 Shigella boydii Sb227 3781572 YP_408961.1 CDS yfhL NC_007613.1 2596742 2597002 D Code: C; COG: COG1145; hypothetical protein 2596742..2597002 Shigella boydii Sb227 3781573 YP_408962.1 CDS acpS NC_007613.1 2597696 2598076 R Catalyzes the formation of holo-ACP, which mediates the essential transfer of acyl fatty acid intermediates during the biosynthesis of fatty acids and lipids; 4'-phosphopantetheinyl transferase complement(2597696..2598076) Shigella boydii Sb227 3781574 YP_408963.1 CDS pdxJ NC_007613.1 2598076 2598807 R involved in the de novo synthesis of pyridoxine (Vitamin B6); pyridoxine 5'-phosphate synthase complement(2598076..2598807) Shigella boydii Sb227 3781575 YP_408964.1 CDS recO NC_007613.1 2598819 2599547 R protein interacts with RecR and possibly RecF proteins; involved in DNA repair and RecFOR pathway recombination; RecFOR proteins displace ssDNA-binding protein and facilitate the production of RecA-coated ssDNA; DNA repair protein RecO complement(2598819..2599547) Shigella boydii Sb227 3781576 YP_408965.1 CDS era NC_007613.1 2599559 2600464 R Era; Escherichia coli Ras-like protein; Bex; Bacillus Era-complementing segment; essential protein in Escherichia coli that is involved in many cellular processes; GTPase; binds the cell membrane through apparent C-terminal domain; mutants are arrested during the cell cycle; Streptococcus pneumoniae Era binds to RNA and Escherichia coli Era binds 16S rRNA and 30S ribosome; GTP-binding protein Era complement(2599559..2600464) Shigella boydii Sb227 3781577 YP_408966.1 CDS rnc NC_007613.1 2600461 2601141 R ds RNA; cytoplasmic enzyme involved in processing rRNA and some mRNAs; substrates typically have dsRNA regions; forms a homodimer; have N-terminal nuclease and C-terminal RNA-binding domains; requires magnesium as preferred ion for activity; ribonuclease III complement(2600461..2601141) Shigella boydii Sb227 3781578 YP_408967.1 CDS lepB NC_007613.1 2601414 2602388 R catalyzes the cleavage of the amino-terminal leader peptide from secretory proteins; signal peptidase I complement(2601414..2602388) Shigella boydii Sb227 3781579 YP_408968.1 CDS lepA NC_007613.1 2602404 2604203 R may be inner membrane protein; binds to the ribosome on the universally-conserved alpha-sarcin loop; GTP-binding protein LepA complement(2602404..2604203) Shigella boydii Sb227 3781580 YP_408969.1 CDS rseC NC_007613.1 2604401 2604880 R negative regulatory protein; involved in the reduction of the SoxR iron-sulfur cluster; SoxR reducing system protein RseC complement(2604401..2604880) Shigella boydii Sb227 3781581 YP_408970.1 CDS rseB NC_007613.1 2604877 2605833 R periplasmic protein; interacts with the C-terminal domain of RseA and stimulates RseA binding to sigmaE via the cytoplasmic RseA N-terminal domain which then sequesters sigmaE in the membrane thereby preventing sigmaE associated with core RNAP; periplasmic negative regulator of sigmaE complement(2604877..2605833) Shigella boydii Sb227 3781582 YP_408971.1 CDS rseA NC_007613.1 2605833 2606483 R negative regulatory protein; Code: T; COG: COG3073; anti-RNA polymerase sigma factor SigE complement(2605833..2606483) Shigella boydii Sb227 3781583 YP_408972.1 CDS rpoE NC_007613.1 2606516 2607091 R heat shock and oxidative stress; Member of the extracytoplasmic function sigma factors which are active under specific conditions; binds with the catalytic core of RNA polymerase to produce the holoenzyme and directs bacterial core RNA polymerase to specific promoter elements to initiate transcription; this sigma factor is involved in heat shock and oxidative stress response; RNA polymerase sigma factor RpoE complement(2606516..2607091) Shigella boydii Sb227 3781584 YP_408973.1 CDS SBO_2603 NC_007613.1 2608077 2608790 R Code: L; COG: COG2801; IS600 ORF2 complement(2608077..2608790) Shigella boydii Sb227 3781586 YP_408974.1 CDS SBO_2604 NC_007613.1 2608931 2609233 R Code: L; COG: COG2963; IS600 ORF1 complement(2608931..2609233) Shigella boydii Sb227 3781587 YP_408975.1 CDS yfiC NC_007613.1 2610373 2611230 R Code: R; COG: COG4123; hypothetical protein complement(2610373..2611230) Shigella boydii Sb227 3781588 YP_408976.1 CDS srmB NC_007613.1 2611242 2612576 D facilitates an early step in the assembly of the 50S subunit of the ribosome; ATP-dependent RNA helicase SrmB 2611242..2612576 Shigella boydii Sb227 3781589 YP_408977.1 CDS yfiE NC_007613.1 2612785 2613711 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(2612785..2613711) Shigella boydii Sb227 3781590 YP_408978.2 CDS SBO_2608 NC_007613.1 2613753 2614658 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(2613753..2614658) Shigella boydii Sb227 3781591 YP_408979.1 CDS SBO_2609 NC_007613.1 2614616 2614981 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(2614616..2614981) Shigella boydii Sb227 3781592 YP_408980.1 CDS yfiK NC_007613.1 2615105 2615692 D Code: E; COG: COG1280; neutral amino-acid efflux protein 2615105..2615692 Shigella boydii Sb227 3781593 YP_408981.1 CDS yfiD NC_007613.1 2615748 2616131 R stress-induced glycyl radical protein that can replace an oxidatively damaged pyruvate formate-lyase subunit; autonomous glycyl radical cofactor GrcA complement(2615748..2616131) Shigella boydii Sb227 3781594 YP_408982.1 CDS ung NC_007613.1 2616436 2617125 D Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine; uracil-DNA glycosylase 2616436..2617125 Shigella boydii Sb227 3781595 YP_408983.1 CDS yfiF NC_007613.1 2617173 2618210 R Code: J; COG: COG0566; methyltransferase complement(2617173..2618210) Shigella boydii Sb227 3781596 YP_408984.1 CDS trxC NC_007613.1 2618417 2618836 D Code: OC; COG: COG0526; thioredoxin 2 2618417..2618836 Shigella boydii Sb227 3781597 YP_408985.1 CDS yfiP NC_007613.1 2618881 2619603 D Code: S; COG: COG3148; hypothetical protein 2618881..2619603 Shigella boydii Sb227 3781598 YP_408986.1 CDS yfiQ NC_007613.1 2619635 2622295 D Code: C; COG: COG1042; hypothetical protein 2619635..2622295 Shigella boydii Sb227 3781599 YP_408987.1 CDS pssA NC_007613.1 2622406 2623764 D phospholipid synthesis; catalyzes de novo synthesis of phosphatidylserine from CDP-diacylglycerol and L-serine which leads eventually to the production of phosphatidylethanolamine; bounds to the ribosome; phosphatidylserine synthase 2622406..2623764 Shigella boydii Sb227 3781600 YP_408988.1 CDS yfiM NC_007613.1 2623861 2624133 D Code: R; COG: COG5544; hypothetical protein 2623861..2624133 Shigella boydii Sb227 3781601 YP_408989.1 CDS kgtP NC_007613.1 2624130 2625428 R Code: GEPR; COG: COG0477; alpha-ketoglutarate transporter complement(2624130..2625428) Shigella boydii Sb227 3781602 YP_408990.1 CDS SBO_2625 NC_007613.1 2631298 2631936 R IS4 orf complement(2631298..2631936) Shigella boydii Sb227 3781608 YP_408991.1 CDS SBO_2626 NC_007613.1 2632055 2632645 R IS4 orf complement(2632055..2632645) Shigella boydii Sb227 3781609 YP_408992.1 CDS clpB NC_007613.1 2632735 2635308 R Code: O; COG: COG0542; protein disaggregation chaperone complement(2632735..2635308) Shigella boydii Sb227 3781610 YP_408993.1 CDS yfiH NC_007613.1 2635438 2636169 R Code: S; COG: COG1496; hypothetical protein complement(2635438..2636169) Shigella boydii Sb227 3781611 YP_408994.1 CDS rluD NC_007613.1 2636166 2637146 R responsible for synthesis of pseudouridine from uracil at positions 1911, 1915 and 1917 in 23S ribosomal RNA; 23S rRNA pseudouridine synthase D complement(2636166..2637146) Shigella boydii Sb227 3781612 YP_408995.1 CDS SBO_2630 NC_007613.1 2637281 2638018 D with YaeT, NlpB and YfgL forms a complex involved in the proper assembly and/or targeting of OMPs to the outer membrane; involved in resistance to ampicillin and tetracycline; outer membrane protein assembly complex subunit YfiO 2637281..2638018 Shigella boydii Sb227 3781613 YP_408996.1 CDS SBO_2631 NC_007613.1 2638122 2639324 D Code: L; COG: COG3385; IS4 orf 2638122..2639324 Shigella boydii Sb227 3781614 YP_408997.1 CDS SBO_2632 NC_007613.1 2639376 2639663 D Code: L; COG: COG2963; IS600 ORF1 2639376..2639663 Shigella boydii Sb227 3781615 YP_408998.1 CDS SBO_2633 NC_007613.1 2639818 2640531 D Code: L; COG: COG2801; IS600 ORF2 2639818..2640531 Shigella boydii Sb227 3781616 YP_408999.1 CDS SBO_2634 NC_007613.1 2640754 2640960 D hypothetical protein 2640754..2640960 Shigella boydii Sb227 3781617 YP_409000.1 CDS yfiA NC_007613.1 2640995 2641336 D associated with 30S ribosomal subunit; interferes with translation elongation; translation inhibitor protein RaiA 2640995..2641336 Shigella boydii Sb227 3781618 YP_409002.1 CDS pheA NC_007613.1 2641587 2642747 D catalyzing the formation of prephenate from chorismate and the formation of phenylpyruvate from prephenate in phenylalanine biosynthesis; bifunctional chorismate mutase/prephenate dehydratase 2641587..2642747 Shigella boydii Sb227 3781620 YP_409003.1 CDS tyrA NC_007613.1 2642790 2643911 R catalyzes the formation of prephenate from chorismate and the formation of 4-hydroxyphenylpyruvate from prephenate in tyrosine biosynthesis; bifunctional chorismate mutase/prephenate dehydrogenase complement(2642790..2643911) Shigella boydii Sb227 3781621 YP_409004.1 CDS aroF NC_007613.1 2643922 2644992 R DAHP synthetase, tyrosine repressible; catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7 phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate, tyrosine sensitive; phospho-2-dehydro-3-deoxyheptonate aldolase complement(2643922..2644992) Shigella boydii Sb227 3781622 YP_409005.1 CDS yfiL NC_007613.1 2645200 2645565 D hypothetical protein 2645200..2645565 Shigella boydii Sb227 3781623 YP_409006.1 CDS SBO_2641 NC_007613.1 2645715 2646233 D hypothetical protein 2645715..2646233 Shigella boydii Sb227 3781624 YP_409007.1 CDS SBO_2642 NC_007613.1 2646223 2647113 D hypothetical protein 2646223..2647113 Shigella boydii Sb227 3781625 YP_409008.1 CDS insB NC_007613.1 2647048 2647551 R Code: L; COG: COG1662; IS1 ORF2 complement(2647048..2647551) Shigella boydii Sb227 3781626 YP_409009.1 CDS SBO_2644 NC_007613.1 2647626 2647859 D IS1 encoded protein 2647626..2647859 Shigella boydii Sb227 3781627 YP_409010.1 CDS cysH NC_007613.1 2648095 2648829 R catalyzes the reduction of 3'-phosphoadenylyl sulfate into sulfite; phosphoadenosine phosphosulfate reductase complement(2648095..2648829) Shigella boydii Sb227 3781628 YP_409011.1 CDS cysI NC_007613.1 2648904 2650616 R hemoprotein; NADPH dependent; with the alpha subunit (a flavoprotein) catalyzes the reduction of sulfite to sulfide; sulfite reductase subunit beta complement(2648904..2650616) Shigella boydii Sb227 3781629 YP_409012.1 CDS cysJ NC_007613.1 2650616 2652415 R catalyzes the reduction of sulfite to sulfide in the biosynthesis of L-cysteine from sulfate; a flavoprotein with flavin reductase activity; sulfite reductase subunit alpha complement(2650616..2652415) Shigella boydii Sb227 3781630 YP_409013.1 CDS SBO_2648 NC_007613.1 2652489 2653328 R Code: L; COG: COG2801; IS911 ORF2 complement(2652489..2653328) Shigella boydii Sb227 3781631 YP_409014.1 CDS ygcM NC_007613.1 2653983 2654348 D Code: H; COG: COG0720; 6-pyruvoyl tetrahydrobiopterin synthase 2653983..2654348 Shigella boydii Sb227 3781632 YP_409015.1 CDS ygcN NC_007613.1 2654426 2655694 D Code: C; COG: COG0644; hypothetical protein 2654426..2655694 Shigella boydii Sb227 3781633 YP_409016.1 CDS ygcO NC_007613.1 2655649 2655945 D Code: C; COG: COG2440; hypothetical protein 2655649..2655945 Shigella boydii Sb227 3781634 YP_409017.1 CDS ygcP NC_007613.1 2655962 2656537 D Code: K; COG: COG1954; anti-terminator regulatory protein 2655962..2656537 Shigella boydii Sb227 3781635 YP_409018.1 CDS ygcQ NC_007613.1 2656685 2657578 R Code: C; COG: COG2025; flavoprotein complement(2656685..2657578) Shigella boydii Sb227 3781636 YP_409019.1 CDS ygcR NC_007613.1 2657542 2658321 R Code: C; COG: COG2086; transporter complement(2657542..2658321) Shigella boydii Sb227 3781637 YP_409020.1 CDS insB NC_007613.1 2658573 2659076 D Code: L; COG: COG1662; IS1 ORF2 2658573..2659076 Shigella boydii Sb227 3781638 YP_409021.1 CDS ygcF NC_007613.1 2660021 2660692 R Code: O; COG: COG0602; hypothetical protein complement(2660021..2660692) Shigella boydii Sb227 3781639 YP_409022.1 CDS ygcG NC_007613.1 2661153 2661857 D Code: R; COG: COG1512; hypothetical protein 2661153..2661857 Shigella boydii Sb227 3781640 YP_409023.1 CDS SBO_2658 NC_007613.1 2661899 2662540 R IS4 orf complement(2661899..2662540) Shigella boydii Sb227 3781641 YP_409024.1 CDS SBO_2659 NC_007613.1 2662659 2663249 R IS4 orf complement(2662659..2663249) Shigella boydii Sb227 3781642 YP_409025.1 CDS eno NC_007613.1 2663356 2664654 R enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis; phosphopyruvate hydratase complement(2663356..2664654) Shigella boydii Sb227 3781643 YP_409026.1 CDS pyrG NC_007613.1 2664742 2666379 R CTP synthase; cytidine triphosphate synthetase; catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen; in Escherichia coli this enzyme forms a homotetramer; CTP synthetase complement(2664742..2666379) Shigella boydii Sb227 3781644 YP_409027.1 CDS mazG NC_007613.1 2666607 2667398 R functions in degradation of stringent response intracellular messenger ppGpp; in Escherichia coli this gene is co-transcribed with the toxin/antitoxin genes mazEF; activity of MazG is inhibited by MazEF in vitro; ppGpp inhibits mazEF expression; MazG thus works in limiting the toxic activity of the MazF toxin induced during starvation; MazG also interacts with the GTPase protein Era; nucleoside triphosphate pyrophosphohydrolase complement(2666607..2667398) Shigella boydii Sb227 3781645 YP_409028.1 CDS chpA NC_007613.1 2667469 2667804 R probable growth inhibitor, PemK-like, autoregulated; MazF; endoribonuclease; toxin of the ChpA-ChpR toxin-antitoxin system; toxin ChpA complement(2667469..2667804) Shigella boydii Sb227 3781646 YP_409029.1 CDS chpR NC_007613.1 2667804 2668052 R suppressor of inhibitory function of ChpA, PemI-like, autoregulated; part of the MazF-MazE toxin-antitoxin system; conteracts MazF; antitoxin MazE complement(2667804..2668052) Shigella boydii Sb227 3781647 YP_409030.1 CDS relA NC_007613.1 2668130 2670364 R GTP pyrophosphokinase; regulation of RNA synthesis; stringent factor; (p)ppGpp synthetase; catalyzes the formation of pppGpp and ppGpp from ATP and GTP or GDP; GDP/GTP pyrophosphokinase complement(2668130..2670364) Shigella boydii Sb227 3781648 YP_409031.1 CDS rumA NC_007613.1 2670412 2671713 R in Escherichia coli this enzyme catalyzes the SAM-dependent methylation of U1939 in the 23S ribomal RNA; binds an iron-sulfur cluster [4Fe-4S]; 23S rRNA 5-methyluridine methyltransferase complement(2670412..2671713) Shigella boydii Sb227 3781649 YP_409032.1 CDS barA NC_007613.1 2671770 2674526 D activates OmpR by phophorylation; part of the two-component regulatory system with UvrY; involved in the regulation of carbon metabolism via the csrA/csrB regulatory system; hybrid sensory histidine kinase BarA 2671770..2674526 Shigella boydii Sb227 3781650 YP_409033.1 CDS ygcX NC_007613.1 2674758 2676098 R Code: MR; COG: COG4948; glucarate dehydratase complement(2674758..2676098) Shigella boydii Sb227 3781651 YP_409034.1 CDS ygcY NC_007613.1 2676119 2677459 R Code: MR; COG: COG4948; glucarate dehydratase complement(2676119..2677459) Shigella boydii Sb227 3781652 YP_409035.1 CDS SBO_2670 NC_007613.1 2677461 2678768 R Code: GEPR; COG: COG0477; transporter complement(2677461..2678768) Shigella boydii Sb227 3781653 YP_409036.1 CDS SBO_2671 NC_007613.1 2679233 2679682 R An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic group; flavodoxin complement(2679233..2679682) Shigella boydii Sb227 3781654 YP_409037.1 CDS yqcB NC_007613.1 2679700 2680482 R catalyzes formation of pseudouridine at position 65 in tRNA-Ile1 and tRNA-Asp; tRNA pseudouridine synthase C complement(2679700..2680482) Shigella boydii Sb227 3781655 YP_409038.1 CDS SBO_2673 NC_007613.1 2680482 2680811 R Code: S; COG: COG3098; hypothetical protein complement(2680482..2680811) Shigella boydii Sb227 3781656 YP_409039.1 CDS syd NC_007613.1 2681433 2681978 R SecY regulator that either chelates excess SecY or negatively regulates the SecYE translocase function; SecY interacting protein Syd complement(2681433..2681978) Shigella boydii Sb227 3781657 YP_409040.1 CDS queF NC_007613.1 2682046 2682894 D catalyzes the NADPH-dependent reduction of 7-cyano-7-deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1) in queuosine biosynthesis; 7-cyano-7-deazaguanine reductase 2682046..2682894 Shigella boydii Sb227 3781658 YP_409041.1 CDS ygdH NC_007613.1 2683006 2684370 D Code: R; COG: COG1611; hypothetical protein 2683006..2684370 Shigella boydii Sb227 3781659 YP_409042.1 CDS sdaC NC_007613.1 2684927 2686216 D Code: E; COG: COG0814; serine transporter 2684927..2686216 Shigella boydii Sb227 3781660 YP_409043.1 CDS sdaB NC_007613.1 2686274 2687641 D deaminase; L-SD2; Code: E; COG: COG1760; L-serine dehydratase 2686274..2687641 Shigella boydii Sb227 3781661 YP_409044.1 CDS xni NC_007613.1 2687663 2688508 D has 3'-5' exonuclease activity that preferentially acts on ssDNA; also 3'-phosphodiesterase activity at sites with 3' incised apurinic/apyrimidinic sites; can remove 3' phosphoglycolate groups; exonuclease IX 2687663..2688508 Shigella boydii Sb227 3781662 YP_409045.1 CDS fucA NC_007613.1 2689778 2690425 R catalyzes the formation of glycerone phosphate and (S)-lactaldehyde from L-fuculose 1-phosphate; L-fuculose phosphate aldolase complement(2689778..2690425) Shigella boydii Sb227 3781664 YP_409046.1 CDS SBO_2682 NC_007613.1 2690493 2690669 R IS1 encoded protein complement(2690493..2690669) Shigella boydii Sb227 3781665 YP_409047.1 CDS insB NC_007613.1 2690762 2691265 D Code: L; COG: COG1662; IS1 ORF2 2690762..2691265 Shigella boydii Sb227 3781666 YP_409048.1 CDS fucI NC_007613.1 2692354 2694099 D catalyzes the conversion of the aldose L-fucose into the corresponding ketose L-fuculose; L-fucose isomerase 2692354..2694099 Shigella boydii Sb227 3781668 YP_409049.1 CDS fucU NC_007613.1 2695516 2695938 D Code: G; COG: COG4154; protein of fucose operon 2695516..2695938 Shigella boydii Sb227 3781670 YP_409050.1 CDS fucR NC_007613.1 2695996 2696727 D regulates expression of genes involved in L-fucose utilization; DNA-binding transcriptional activator FucR 2695996..2696727 Shigella boydii Sb227 3781671 YP_409051.1 CDS ygdE NC_007613.1 2696771 2697871 R Code: R; COG: COG2933; RNA 2'-O-ribose methyltransferase complement(2696771..2697871) Shigella boydii Sb227 3781672 YP_409052.1 CDS ygdD NC_007613.1 2697864 2698259 R Code: S; COG: COG2363; hypothetical protein complement(2697864..2698259) Shigella boydii Sb227 3781673 YP_409053.1 CDS gcvA NC_007613.1 2698278 2699195 R Glycine cleavage system transcriptional activator; activates the gcvTHP operon in the presence of glycine and represses the operon in its absence; DNA-binding transcriptional activator GcvA complement(2698278..2699195) Shigella boydii Sb227 3781674 YP_409054.1 CDS SBO_2692 NC_007613.1 2699546 2699776 R hypothetical protein complement(2699546..2699776) Shigella boydii Sb227 3781675 YP_409055.1 CDS SBO_2693 NC_007613.1 2699965 2701170 D Code: E; COG: COG0520; cysteine sulfinate desulfinase 2699965..2701170 Shigella boydii Sb227 3781676 YP_409056.1 CDS ygdK NC_007613.1 2701170 2701613 D Code: R; COG: COG2166; hypothetical protein 2701170..2701613 Shigella boydii Sb227 3781677 YP_409057.1 CDS ygdL NC_007613.1 2701664 2702470 R Code: H; COG: COG1179; hypothetical protein complement(2701664..2702470) Shigella boydii Sb227 3781678 YP_409058.1 CDS mltA NC_007613.1 2702547 2703644 R membrane-bound, lytic; catalyzes the cleavage of the beta-1,4-glycosidic bond between N-acetylmuramic acid and N-acetylglucosamine residues; murein transglycosylase A complement(2702547..2703644) Shigella boydii Sb227 3781679 YP_409059.1 CDS SBO_2700 NC_007613.1 2704227 2705174 R Code: HE; COG: COG0111; phosphoglycerate dehydrogenase complement(2704227..2705174) Shigella boydii Sb227 3781683 YP_409060.1 CDS insB NC_007613.1 2705412 2705915 R Code: L; COG: COG1662; IS1 ORF2 complement(2705412..2705915) Shigella boydii Sb227 3781684 YP_409061.1 CDS SBO_2702 NC_007613.1 2705990 2706172 D IS1 encoded protein 2705990..2706172 Shigella boydii Sb227 3781685 YP_409062.1 CDS SBO_2703 NC_007613.1 2706143 2706619 R Code: M; COG: COG0794; isomerase complement(2706143..2706619) Shigella boydii Sb227 3781686 YP_409063.1 CDS SBO_2704 NC_007613.1 2706588 2707796 R maltose regulon modulator; Code: E; COG: COG1168; cystathionine beta-lyase complement(2706588..2707796) Shigella boydii Sb227 3781687 YP_409064.1 CDS SBO_2706 NC_007613.1 2709408 2710055 R Code: K; COG: COG3711; hypothetical protein complement(2709408..2710055) Shigella boydii Sb227 3781689 YP_409065.1 CDS SBO_2707 NC_007613.1 2710491 2711834 R Code: M; COG: COG0860; amidase complement(2710491..2711834) Shigella boydii Sb227 3781690 YP_409066.1 CDS argA NC_007613.1 2711976 2713307 D amino acid acetyltransferase; catalyzes the formation of N-acetyl-L-glutamate from L-glutamate and acetyl-CoA in arginine biosynthesis; N-acetylglutamate synthase 2711976..2713307 Shigella boydii Sb227 3781691 YP_409067.1 CDS recD NC_007613.1 2713369 2715195 R DNA helicase; ssDNA endonuclease; helicase/nuclease; with RecBC catalyzes the exonucleolytic cleavage of DNA; RecD has 5' to 3' helicase activity; exonuclease V subunit alpha complement(2713369..2715195) Shigella boydii Sb227 3781692 YP_409068.1 CDS recB NC_007613.1 2715195 2718737 R DNA helicase; ssDNA endonuclease; helicase/nuclease; with RecCD catalyzes the exonucleolytic cleavage of DNA; RecD has 5' to 3' helicase activity; exonuclease V subunit beta complement(2715195..2718737) Shigella boydii Sb227 3781693 YP_409069.1 CDS ptr NC_007613.1 2718730 2721618 R Code: O; COG: COG1025; protease III complement(2718730..2721618) Shigella boydii Sb227 3781694 YP_409070.1 CDS recC NC_007613.1 2721794 2725162 R DNA helicase; ssDNA endonuclease; catalyzes ATP-dependent exonucleolytic cleavage in either 5'- to 3'- or 3'- to 5'-direction to yield 5'-phosphooligonucleotides; component of the RecBCD (Exo V) helicase/nuclease complex that is essential for recombination; exonuclease V subunit gamma complement(2721794..2725162) Shigella boydii Sb227 3781695 YP_409071.1 CDS ppdC NC_007613.1 2725175 2725498 R Code: NU; COG: COG4967; hypothetical protein complement(2725175..2725498) Shigella boydii Sb227 3781696 YP_409072.2 CDS ygdB NC_007613.1 2725483 2725890 R hypothetical protein complement(2725483..2725890) Shigella boydii Sb227 3781697 YP_409073.1 CDS SBO_2715 NC_007613.1 2726702 2727052 D Code: L; COG: COG3436; protein encoded within IS 2726702..2727052 Shigella boydii Sb227 3781698 YP_409074.1 CDS SBO_2716 NC_007613.1 2727272 2728675 D Code: L; COG: COG3436; protein encoded within IS 2727272..2728675 Shigella boydii Sb227 3781699 YP_409075.1 CDS ppdA NC_007613.1 2728955 2729425 R Code: NU; COG: COG2165; hypothetical protein complement(2728955..2729425) Shigella boydii Sb227 3781701 YP_409076.1 CDS thyA NC_007613.1 2729610 2730404 R ThyA; catalyzes formation of dTMP and 7,8-dihydrofolate from 5,10-methylenetetrahydrofolate and dUMP; involved in deoxyribonucleotide biosynthesis; there are 2 copies in some Bacilli, one of which appears to be phage-derived; thymidylate synthase complement(2729610..2730404) Shigella boydii Sb227 3781702 YP_409077.1 CDS lgt NC_007613.1 2730411 2731286 R a major membrane phospholipid; transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein; prolipoprotein diacylglyceryl transferase complement(2730411..2731286) Shigella boydii Sb227 3781703 YP_409078.1 CDS ptsP NC_007613.1 2731437 2733683 R transcriptional regulator (with NPR and NTR proteins); member of a second PTS chain involved in nitrogen metabolism; PtsP phosphorylates NPr; fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain-containing protein complement(2731437..2733683) Shigella boydii Sb227 3781704 YP_409079.1 CDS ygdP NC_007613.1 2733696 2734226 R hydrolyzes diadenosine polyphosphate; dinucleoside polyphosphate hydrolase complement(2733696..2734226) Shigella boydii Sb227 3781705 YP_409080.1 CDS mutH NC_007613.1 2734911 2735600 D MutH; Sequence-specific endonuclease that cleaves unmethylated GATC sequences during DNA repair; DNA mismatch repair protein 2734911..2735600 Shigella boydii Sb227 3781706 YP_409081.1 CDS SBO_2724 NC_007613.1 2735669 2736382 D Code: P; COG: COG0861; transporter 2735669..2736382 Shigella boydii Sb227 3781707 YP_409082.1 CDS SBO_2725 NC_007613.1 2736520 2736738 D hypothetical protein 2736520..2736738 Shigella boydii Sb227 3781708 YP_409083.1 CDS tas NC_007613.1 2736846 2737886 D complements the prephenate dehydrogenase dysfunction of an Escherichia coli tyrosine auxotroph strain; member of the aldo/keto reductase 2 family; crystal structure of purified Escherichia coli protein shows bound NADPH; aldo-keto reductase 2736846..2737886 Shigella boydii Sb227 3781709 YP_409084.1 CDS ygeD NC_007613.1 2737918 2739111 R Code: GEPR; COG: COG0477; lysophospholipid transporter LplT complement(2737918..2739111) Shigella boydii Sb227 3781710 YP_409085.1 CDS aas NC_007613.1 2739104 2741263 R acyl-acyl-carrier protein synthetase; Transfers fatty acids to the 1-position via an enzyme-bound acyl-ACP intermediate in the presence of ATP and magnesium. Its physiological function is to regenerate phosphatidylethanolamine from 2-acyl-glycero-3-phosphoethanolamine (2-acyl-GPE) formed by transacylation reactions or degradation by phospholipase A1; bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase complement(2739104..2741263) Shigella boydii Sb227 3781711 YP_409086.1 CDS galR NC_007613.1 2741652 2742683 D controls transcription of galETKM; DNA-binding transcriptional regulator GalR 2741652..2742683 Shigella boydii Sb227 3781712 YP_409087.1 CDS lysA NC_007613.1 2742690 2743952 R catalyzes the decarboxylation of diaminopimelate into lysine; pyridoxal phosphate(PLP)-binding; diaminopimelate decarboxylase complement(2742690..2743952) Shigella boydii Sb227 3781713 YP_409088.1 CDS lysR NC_007613.1 2744074 2745009 D activates the transcription of the lysA gene encoding diaminopimelate decarboxylase; DNA-binding transcriptional regulator LysR 2744074..2745009 Shigella boydii Sb227 3781714 YP_409089.1 CDS ygeA NC_007613.1 2744996 2745688 R Code: M; COG: COG1794; racemase complement(2744996..2745688) Shigella boydii Sb227 3781715 YP_409090.1 CDS kduD NC_007613.1 2747547 2748308 R catalyzes the formation of 3-dehydro-2-deoxy-D-gluconate from 2-deoxy-D-gluconate; 2-deoxy-D-gluconate 3-dehydrogenase complement(2747547..2748308) Shigella boydii Sb227 3781717 YP_409091.1 CDS kduI NC_007613.1 2748338 2749174 R 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase; catalyzes the interconversion of 4-deoxy-L-threo-5-hexosulose uronate to 3-deoxy-D-glycero-2,5-hexodiulosonate; 5-keto-4-deoxyuronate isomerase complement(2748338..2749174) Shigella boydii Sb227 3781718 YP_409092.2 CDS yqeF NC_007613.1 2749461 2750642 R Catalyzes the synthesis of acetoacetyl coenzyme A from two molecules of acetyl coenzyme A. It can also act as a thiolase, catalyzing the reverse reaction and generating two-carbon units from the four-carbon product of fatty acid oxidation; in Rhizobia and Ralstonia is involved in PHB biosynthesis; acetyl-CoA acetyltransferase complement(2749461..2750642) Shigella boydii Sb227 3781719 YP_409093.1 CDS insB NC_007613.1 2751312 2751815 R Code: L; COG: COG1662; IS1 ORF2 complement(2751312..2751815) Shigella boydii Sb227 3781721 YP_409094.1 CDS SBO_2739 NC_007613.1 2751908 2752120 D IS1 encoded protein 2751908..2752120 Shigella boydii Sb227 3781722 YP_409095.1 CDS SBO_2740 NC_007613.1 2752179 2752490 D Code: T; COG: COG2199; hypothetical protein 2752179..2752490 Shigella boydii Sb227 3781723 YP_409096.1 CDS yfiB NC_007613.1 2752506 2752988 D Code: M; COG: COG2885; outer membrane lipoprotein 2752506..2752988 Shigella boydii Sb227 3781724 YP_409097.1 CDS rplS NC_007613.1 2753065 2753412 R this protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site; 50S ribosomal protein L19 complement(2753065..2753412) Shigella boydii Sb227 3781725 YP_409098.1 CDS trmD NC_007613.1 2753454 2754221 R tRNA (guanine-7-)-methyltransferase; methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA; tRNA (guanine-N(1)-)-methyltransferase complement(2753454..2754221) Shigella boydii Sb227 3781726 YP_409099.2 CDS rimM NC_007613.1 2754252 2754800 R Essential for efficient processing of 16S rRNA; 16S rRNA-processing protein RimM complement(2754252..2754800) Shigella boydii Sb227 3781727 YP_409100.1 CDS rpsP NC_007613.1 2754819 2755067 R binds to lower part of 30S body where it stabilizes two domains; required for efficient assembly of 30S; in Escherichia coli this protein has nuclease activity; 30S ribosomal protein S16 complement(2754819..2755067) Shigella boydii Sb227 3781728 YP_409101.1 CDS ffh NC_007613.1 2755204 2756565 R binds to signal sequence, GTP and RNA; with 4.5S RNA forms a signal recognition particle involved in targeting and integration of inner membrane proteins; signal recognition particle protein complement(2755204..2756565) Shigella boydii Sb227 3781729 YP_409102.1 CDS SBO_2747 NC_007613.1 2756657 2757523 D Code: R; COG: COG4137; hypothetical protein 2756657..2757523 Shigella boydii Sb227 3781730 YP_409103.2 CDS yfjD NC_007613.1 2757634 2758830 D Code: P; COG: COG4536; hypothetical protein 2757634..2758830 Shigella boydii Sb227 3781731 YP_409104.1 CDS grpE NC_007613.1 2758885 2759478 R phage lambda replication; host DNA synthesis; heat shock protein; protein repair; with DnaK and DnaJ acts in response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins; may act as a thermosensor; heat shock protein GrpE complement(2758885..2759478) Shigella boydii Sb227 3781732 YP_409105.1 CDS ppnK NC_007613.1 2759601 2760479 D catalyzes the phosphorylation of NAD to NADP; inorganic polyphosphate/ATP-NAD kinase 2759601..2760479 Shigella boydii Sb227 3781733 YP_409106.1 CDS recN NC_007613.1 2760565 2762226 D Code: L; COG: COG0497; recombination and repair protein 2760565..2762226 Shigella boydii Sb227 3781734 YP_409107.1 CDS smpA NC_007613.1 2762564 2762716 D Code: J; COG: COG2913; small membrane protein A 2762564..2762716 Shigella boydii Sb227 3781735 YP_409108.2 CDS SBO_2753 NC_007613.1 2762778 2763068 R Code: S; COG: COG2914; hypothetical protein complement(2762778..2763068) Shigella boydii Sb227 3781736 YP_409109.1 CDS SBO_2754 NC_007613.1 2763058 2763534 R Code: I; COG: COG2867; hypothetical protein complement(2763058..2763534) Shigella boydii Sb227 3781737 YP_409110.1 CDS smpB NC_007613.1 2763666 2764148 D binds to ssrA RNA (tmRNA) and is required for its successful binding to ribosomes; also appears to function in the trans-translation step by promoting accommodation of tmRNA into the ribosomal A site; SmpB protects the tmRNA from RNase R degradation in Caulobacter crescentus; both the tmRNA and SmpB are regulated in cell cycle-dependent manner; functions in release of stalled ribosomes from damaged mRNAs and targeting proteins for degradation; SsrA-binding protein 2763666..2764148 Shigella boydii Sb227 3781738 YP_409111.1 CDS insB NC_007613.1 2767211 2767714 R Code: L; COG: COG1662; IS1 ORF2 complement(2767211..2767714) Shigella boydii Sb227 3781740 YP_409112.1 CDS SBO_2758 NC_007613.1 2767789 2767971 D IS1 encoded protein 2767789..2767971 Shigella boydii Sb227 3781741 YP_409113.1 CDS ygcB NC_007613.1 2768114 2769523 D Code: R; COG: COG1203; helicase 2768114..2769523 Shigella boydii Sb227 3781742 YP_409114.1 CDS SBO_2760 NC_007613.1 2769621 2771183 D hypothetical protein 2769621..2771183 Shigella boydii Sb227 3781743 YP_409115.1 CDS SBO_2761 NC_007613.1 2771180 2771749 D hypothetical protein 2771180..2771749 Shigella boydii Sb227 3781744 YP_409116.1 CDS yghJ NC_007613.1 2771777 2772514 D hypothetical protein 2771777..2772514 Shigella boydii Sb227 3781745 YP_409117.1 CDS SBO_2763 NC_007613.1 2772866 2773612 D hypothetical protein 2772866..2773612 Shigella boydii Sb227 3781746 YP_409118.1 CDS SBO_2764 NC_007613.1 2773594 2774244 D hypothetical protein 2773594..2774244 Shigella boydii Sb227 3781747 YP_409119.1 CDS SBO_2765 NC_007613.1 2774241 2775161 D Code: L; COG: COG1518; hypothetical protein 2774241..2775161 Shigella boydii Sb227 3781748 YP_409120.1 CDS ygbF NC_007613.1 2775161 2775454 D hypothetical protein 2775161..2775454 Shigella boydii Sb227 3781749 YP_409121.1 CDS iap NC_007613.1 2775661 2776698 R aminopeptidase; catalyzes the sequential removal of 2 amino-terminal arginines from alkaline phosphatase isozyme 1 to form isozymes 2 and 3; alkaline phosphatase isozyme conversion aminopeptidase complement(2775661..2776698) Shigella boydii Sb227 3781750 YP_409122.1 CDS cysD NC_007613.1 2776950 2777858 D ATP:sulfate adenylyltransferase subunit 2; with CysN catalyzes the formation of adenylylsulfate from sulfate and ATP; sulfate adenylyltransferase subunit 2 2776950..2777858 Shigella boydii Sb227 3781751 YP_409123.1 CDS cysN NC_007613.1 2777860 2779287 D ATP:sulfate adenylyltransferase, subunit 1; probably a GTPase; may be GTPase that regulates ATP sulfurylase activity that is involved in converting ATP and sulfate to diphosphate and adenylylsulfate; in Escherichia coli this enzyme functions in cysteine biosynthesis in the first step; forms a heterodimer with CysD; part of the GTP-binding elongation factor family CysN/NodQ; sulfate adenylyltransferase subunit 1 2777860..2779287 Shigella boydii Sb227 3781752 YP_409124.1 CDS cysC NC_007613.1 2779287 2779892 D converts ATP and adenylyl sulfate to ADP and 3'-phosphoadenylyl sulfate; in Escherichia coli this enzyme functions in cysteine biosynthesis; adenylylsulfate kinase 2779287..2779892 Shigella boydii Sb227 3781753 YP_409125.1 CDS ygbE NC_007613.1 2779942 2780265 D hypothetical protein 2779942..2780265 Shigella boydii Sb227 3781754 YP_409126.1 CDS ftsB NC_007613.1 2780459 2780770 D forms a complex with FtsL and FtsQ; colocalizes to the septal region of the dividing cell; membrane protein; cell division protein FtsB 2780459..2780770 Shigella boydii Sb227 3781755 YP_409127.1 CDS ispD NC_007613.1 2780789 2781499 D 4-diphosphocytidyl-2C-methyl-D-erythritol synthase; MEP cytidylyltransferase; MCT; catalyzes the formation of 4-diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate; involved in isoprenoid and isopentenyl-PP biosynthesis; forms homodimers; 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase 2780789..2781499 Shigella boydii Sb227 3781756 YP_409128.1 CDS ispF NC_007613.1 2781499 2781978 D catalyzes the conversion of 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate; 2-C-methyl-D-erythritol 2,4-cyclo diphosphate synthase 2781499..2781978 Shigella boydii Sb227 3781757 YP_409129.1 CDS truD NC_007613.1 2781975 2783024 D catalyzes the modification of U13 in tRNA(Glu); tRNA pseudouridine synthase D 2781975..2783024 Shigella boydii Sb227 3781758 YP_409130.1 CDS surE NC_007613.1 2783005 2783766 D catalyzes the conversion of a phosphate monoester to an alcohol and a phosphate; stationary phase survival protein SurE 2783005..2783766 Shigella boydii Sb227 3781759 YP_409131.1 CDS pcm NC_007613.1 2783760 2784386 D catalyzes the methyl esterification of L-isoaspartyl residues that are formed in damaged proteins; protein-L-isoaspartate O-methyltransferase 2783760..2784386 Shigella boydii Sb227 3781760 YP_409132.1 CDS nlpD NC_007613.1 2784526 2785617 D outer membrane lipoprotein involved in stationary-phase cell survival; similar to LppB virulence determinant from Haemophilus somnus; lipoprotein NlpD 2784526..2785617 Shigella boydii Sb227 3781761 YP_409133.1 CDS rpoS NC_007613.1 2785680 2786675 D sigma38 factor; synthesis of many growth phase related proteins; sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this sigma factor controls a regulon of genes required for protection against external stresses; RNA polymerase sigma factor RpoS 2785680..2786675 Shigella boydii Sb227 3781762 YP_409134.1 CDS SBO_2780 NC_007613.1 2786769 2788133 R member of the Gnt family of gluconate transporters; not involved in gluconate transport; unknown function; inner membrane permease YgbN complement(2786769..2788133) Shigella boydii Sb227 3781763 YP_409135.1 CDS ygbM NC_007613.1 2788222 2788998 R Code: G; COG: COG3622; hypothetical protein complement(2788222..2788998) Shigella boydii Sb227 3781764 YP_409136.1 CDS ygbL NC_007613.1 2789003 2789641 R Code: G; COG: COG0235; aldolase complement(2789003..2789641) Shigella boydii Sb227 3781765 YP_409137.1 CDS SBO_2783 NC_007613.1 2789638 2790900 R Code: S; COG: COG3395; hypothetical protein complement(2789638..2790900) Shigella boydii Sb227 3781766 YP_409138.1 CDS SBO_2784 NC_007613.1 2790897 2791805 R Code: I; COG: COG2084; dehydrogenase complement(2790897..2791805) Shigella boydii Sb227 3781767 YP_409139.1 CDS ygbI NC_007613.1 2791971 2792768 D Code: KG; COG: COG1349; DEOR-type transcriptional regulator 2791971..2792768 Shigella boydii Sb227 3781768 YP_409140.1 CDS pphB NC_007613.1 2792819 2793475 R Code: T; COG: COG0639; serine/threonine-specific protein phosphatase 2 complement(2792819..2793475) Shigella boydii Sb227 3781769 YP_409141.1 CDS mutS NC_007613.1 2793581 2796142 R This protein performs the mismatch recognition step during the DNA repair process; DNA mismatch repair protein MutS complement(2793581..2796142) Shigella boydii Sb227 3781770 YP_409142.1 CDS ygbA NC_007613.1 2796429 2796782 D hypothetical protein 2796429..2796782 Shigella boydii Sb227 3781771 YP_409143.1 CDS fhlA NC_007613.1 2796819 2798897 R Code: KT; COG: COG3604; formate hydrogen-lyase transcriptional activator for fdhF, hyc and hyp operons complement(2796819..2798897) Shigella boydii Sb227 3781772 YP_409144.1 CDS hypE NC_007613.1 2798971 2799939 R plays structural role in maturation of all 3 hydrogenases; Code: O; COG: COG0309; hypothetical protein complement(2798971..2799939) Shigella boydii Sb227 3781773 YP_409145.1 CDS hypD NC_007613.1 2799978 2801099 R pleiotrophic effects on 3 hydrogenase isozymes; Code: O; COG: COG0409; hypothetical protein complement(2799978..2801099) Shigella boydii Sb227 3781774 YP_409146.1 CDS hypC NC_007613.1 2801099 2801371 R pleiotrophic effects on 3 hydrogenase isozymes; HypC; accessory protein necessary for maturation of the hydrogenase isoforms 1, 2 and 3; forms a complex with HypD, HypE, and HypF proteins, which is the site of ligand biosynthesis and attachment to the iron atom of the NiFe site in the hydrogenase; hydrogenase assembly chaperone complement(2801099..2801371) Shigella boydii Sb227 3781775 YP_409147.1 CDS hypB NC_007613.1 2801362 2802234 R functions as nickel donor for large subunit of hydrogenase 3; GTP hydrolase involved in nickel liganding into hydrogenases; hydrogenase nickel incorporation protein HypB complement(2801362..2802234) Shigella boydii Sb227 3781776 YP_409148.1 CDS hypA NC_007613.1 2802238 2802588 R pleiotrophic effects on 3 hydrogenase isozymes; plays a role in hydrogenase nickel cofactor insertion; hydrogenase nickel incorporation protein complement(2802238..2802588) Shigella boydii Sb227 3781777 YP_409149.1 CDS hycC NC_007613.1 2802800 2804236 D part of FHL complex; Code: CP; COG: COG0651; membrane-spanning protein of hydrogenase 3 2802800..2804236 Shigella boydii Sb227 3781778 YP_409150.1 CDS hycD NC_007613.1 2804434 2805357 D part of FHL complex; Code: C; COG: COG0650; membrane-spanning protein of hydrogenase 3 2804434..2805357 Shigella boydii Sb227 3781779 YP_409151.1 CDS hycE NC_007613.1 2805375 2807084 D part of FHL complex; Code: C; COG: COG3261; large subunit of hydrogenase 3 2805375..2807084 Shigella boydii Sb227 3781780 YP_409152.1 CDS hycF NC_007613.1 2807094 2807636 D part of FHL complex; electron transfer protein for hydrogenase-3; the formate hydrogenlyase complex comprises of a formate dehydrogenase, unidentified electron carriers and hydrogenase-3; in this non-energy conserving pathway, molecular hydrogen and carbodioxide are released from formate; formate hydrogenlyase complex iron-sulfur subunit 2807094..2807636 Shigella boydii Sb227 3781781 YP_409153.1 CDS hycG NC_007613.1 2807636 2808403 D Code: C; COG: COG3260; hydrogenase activity 2807636..2808403 Shigella boydii Sb227 3781782 YP_409154.1 CDS hycH NC_007613.1 2808400 2808810 D part of FHL complex; processing of large subunit (HycE) of hydrogenase 3 2808400..2808810 Shigella boydii Sb227 3781783 YP_409155.1 CDS hycI NC_007613.1 2808803 2809273 D protease involved in processing C-terminal end of the large subunit of hydrogenase 3; involved in the C-terminal processing of the large subunit of hydrogenase 3 HycE; hydrogenase 3 maturation protease 2808803..2809273 Shigella boydii Sb227 3781784 YP_409156.1 CDS ascB NC_007613.1 2809432 2810856 R Code: G; COG: COG2723; cryptic 6-phospho-beta-glucosidase complement(2809432..2810856) Shigella boydii Sb227 3781785 YP_409157.1 CDS ascF NC_007613.1 2810865 2812322 R transports specific beta-glucosides; phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system cellobiose/arbutin/salicin-specific transporter subunit IIBC complement(2810865..2812322) Shigella boydii Sb227 3781786 YP_409158.1 CDS ascG NC_007613.1 2812579 2813592 D Code: K; COG: COG1609; ascBF operon repressor 2812579..2813592 Shigella boydii Sb227 3781787 YP_409159.1 CDS hydN NC_007613.1 2813741 2814268 D involved in electron transport from formate to hydrogen, Fe-S centers; electron transport protein HydN 2813741..2814268 Shigella boydii Sb227 3781788 YP_409160.1 CDS hypF NC_007613.1 2814421 2816673 D Code: O; COG: COG0068; transcriptional regulator 2814421..2816673 Shigella boydii Sb227 3781789 YP_409161.1 CDS ygbD NC_007613.1 2816909 2817934 R catalyzes the reduction of the rubredoxin moiety of nitric oxide reductase; nitric oxide reductase complement(2816909..2817934) Shigella boydii Sb227 3781790 YP_409162.1 CDS SBO_2808 NC_007613.1 2817931 2819370 R detoxifies nitric oxide using NADH; anaerobic nitric oxide reductase flavorubredoxin complement(2817931..2819370) Shigella boydii Sb227 3781791 YP_409163.2 CDS ygaA NC_007613.1 2819557 2821071 D Required for the expression of anaerobic nitric oxide (NO) reductase; acts as a transcriptional activator for the norVW operon; anaerobic nitric oxide reductase transcriptional regulator 2819557..2821071 Shigella boydii Sb227 3781792 YP_409164.2 CDS gutQ NC_007613.1 2821068 2822033 R catalyzes the conversion of D-arabinose 5-phosphate to D-ribulose-5-phosphate; D-arabinose 5-phosphate isomerase complement(2821068..2822033) Shigella boydii Sb227 3781793 YP_409165.1 CDS srlR NC_007613.1 2822026 2822799 R regulator for gut (srl) operon; regulates genes involved in glucitol utilization; DNA-binding transcriptional repressor SrlR complement(2822026..2822799) Shigella boydii Sb227 3781794 YP_409166.1 CDS srlD NC_007613.1 2823329 2824108 R catalyzes the conversion of sorbitol 6-phosphate into fructose 6-phosphate; sorbitol-6-phosphate dehydrogenase complement(2823329..2824108) Shigella boydii Sb227 3781796 YP_409167.1 CDS srlB NC_007613.1 2824112 2824483 R phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system glucitol/sorbitol-specific transporter subunit IIA complement(2824112..2824483) Shigella boydii Sb227 3781797 YP_409168.1 CDS srlE NC_007613.1 2824494 2825453 R Code: G; COG: COG3732; PTS system glucitol/sorbitol-specific transporter subunit IIBC complement(2824494..2825453) Shigella boydii Sb227 3781798 YP_409169.1 CDS srlA NC_007613.1 2825450 2826013 R Code: G; COG: COG3730; PTS system glucitol/sorbitol-specific transporter subunit IIC complement(2825450..2826013) Shigella boydii Sb227 3781799 YP_409170.1 CDS mltB NC_007613.1 2826269 2827354 D membrane-bound lytic murein transglycosylase B; catalyzes the cleavage of the glycosidic bonds between N-acetylmuramic acid and N-acetylglucosamine in peptidoglycan; murein hydrolase B 2826269..2827354 Shigella boydii Sb227 3781800 YP_409171.1 CDS ygaD NC_007613.1 2827499 2827996 D Code: R; COG: COG1546; competence damage-inducible protein A 2827499..2827996 Shigella boydii Sb227 3781801 YP_409172.1 CDS recA NC_007613.1 2828076 2829137 D DNA strand exchange and renaturation; catalyzes the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs; recombinase A 2828076..2829137 Shigella boydii Sb227 3781802 YP_409173.1 CDS recX NC_007613.1 2829380 2829880 D regulator; binds RecA and inhibits RecA-mediated DNA strand exchange and ATP hydrolysis and coprotease activities; recombination regulator RecX 2829380..2829880 Shigella boydii Sb227 3781803 YP_409174.1 CDS alaS NC_007613.1 2830008 2832638 D Catalyzes a two-step reaction, first charging an alanyl molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; alanyl-tRNA synthetase 2830008..2832638 Shigella boydii Sb227 3781804 YP_409175.1 CDS csrA NC_007613.1 2832873 2833058 D controls glycogen synthesis, gluconeogenesis, cell size and surface properties; affects carbohydrate metabolism; has regulatory role in many processes; carbon storage regulator 2832873..2833058 Shigella boydii Sb227 3781805 YP_409176.1 CDS yqaB NC_007613.1 2834271 2834798 D YqaB; catalyzes the dephosphorylation of fructose 1-phosphate, 6-phosphogluconate and p-nitrophenyl phosphate (pNPP); presents beta-phosphoglucomutase activity at a lower extent; fructose-1-phosphatase 2834271..2834798 Shigella boydii Sb227 3781810 YP_409177.1 CDS SBO_2828 NC_007613.1 2834795 2835223 D Code: S; COG: COG1238; hypothetical protein 2834795..2835223 Shigella boydii Sb227 3781811 YP_409178.1 CDS gshA NC_007613.1 2835296 2836852 D involved in the first step of glutathione biosynthesis; glutamate--cysteine ligase 2835296..2836852 Shigella boydii Sb227 3781812 YP_409179.1 CDS ygaG NC_007613.1 2837002 2837517 D catalyzes the hydrolysis of S-ribosylhomocysteine to homocysteine and autoinducer-2; S-ribosylhomocysteinase 2837002..2837517 Shigella boydii Sb227 3781813 YP_409180.1 CDS emrB NC_007613.1 2837581 2839119 R probable membrane translocase; Code: GEPR; COG: COG0477; multidrug resistance complement(2837581..2839119) Shigella boydii Sb227 3781814 YP_409181.1 CDS emrA NC_007613.1 2839136 2840308 R Code: V; COG: COG1566; multidrug resistance secretion protein complement(2839136..2840308) Shigella boydii Sb227 3781815 YP_409182.1 CDS emrR NC_007613.1 2840435 2840965 R microcin B17 synthesis; DNA-binding transcriptional repressor of microcin B17 synthesis and multidrug efflux; negative regulator of the multidrug operon emrAB; transcriptional repressor MprA complement(2840435..2840965) Shigella boydii Sb227 3781816 YP_409183.1 CDS ygaH NC_007613.1 2841056 2841391 R hypothetical protein complement(2841056..2841391) Shigella boydii Sb227 3781817 YP_409184.1 CDS SBO_2835 NC_007613.1 2841381 2842118 R Code: E; COG: COG1296; hypothetical protein complement(2841381..2842118) Shigella boydii Sb227 3781818 YP_409185.1 CDS SBO_2836 NC_007613.1 2842242 2843426 R major facilitator superfamily; Code: GEPR; COG: COG0477; permease complement(2842242..2843426) Shigella boydii Sb227 3781819 YP_409186.1 CDS proX NC_007613.1 2843718 2844710 R high-affinity transport system for glycine betaine and proline; with ProVW, part of the high-affinity transport system for the osmoprotectant glycine betaine; glycine betaine transporter periplasmic subunit complement(2843718..2844710) Shigella boydii Sb227 3781820 YP_409187.1 CDS proW NC_007613.1 2844768 2845832 R high-affinity transport system for glycine betaine and proline; with ProVX is involved in the high-affinity uptake of glycine betaine; glycine betaine transporter membrane protein complement(2844768..2845832) Shigella boydii Sb227 3781821 YP_409188.1 CDS proV NC_007613.1 2845825 2847027 R ATP-binding component of transport system for glycine, betaine and proline; with ProWX is involved in the high-affinity uptake of glycine betaine; glycine betaine transporter ATP-binding subunit complement(2845825..2847027) Shigella boydii Sb227 3781822 YP_409189.1 CDS SBO_2840 NC_007613.1 2847760 2848959 D IS1294 transposase 2847760..2848959 Shigella boydii Sb227 3781823 YP_409190.1 CDS nrdF NC_007613.1 2849115 2850029 R B2 or R2 protein; type 1b enzyme; catalyzes the rate-limiting step in dNTP synthesis; converts nucleotides to deoxynucleotides; forms a homodimer and then a multimeric complex with NrdE; ribonucleotide-diphosphate reductase subunit beta complement(2849115..2850029) Shigella boydii Sb227 3781824 YP_409191.1 CDS nrdE NC_007613.1 2850039 2852183 R Catalyzes the rate-limiting step in dNTP synthesis; ribonucleotide-diphosphate reductase subunit alpha complement(2850039..2852183) Shigella boydii Sb227 3781825 YP_409192.1 CDS nrdI NC_007613.1 2852156 2852566 R in Salmonella NrdI has a stimulatory effect on the ribonucleotide reductase activity of NrdH with NrdEF; ribonucleotide reductase stimulatory protein complement(2852156..2852566) Shigella boydii Sb227 3781826 YP_409193.1 CDS nrdH NC_007613.1 2852563 2852808 R hydrogen donor; Code: O; COG: COG0695; glutaredoxin-like protein complement(2852563..2852808) Shigella boydii Sb227 3781827 YP_409194.1 CDS ygaM NC_007613.1 2853056 2853397 R Code: S; COG: COG4575; hypothetical protein complement(2853056..2853397) Shigella boydii Sb227 3781828 YP_409195.1 CDS SBO_2846 NC_007613.1 2853459 2853689 R IS1 encoded protein complement(2853459..2853689) Shigella boydii Sb227 3781829 YP_409196.1 CDS insB NC_007613.1 2853764 2854267 D Code: L; COG: COG1662; IS1 ORF2 2853764..2854267 Shigella boydii Sb227 3781830 YP_409197.1 CDS ygaC NC_007613.1 2854314 2854658 D hypothetical protein 2854314..2854658 Shigella boydii Sb227 3781831 YP_409198.1 CDS SBO_2849 NC_007613.1 2854695 2855144 R hypothetical protein complement(2854695..2855144) Shigella boydii Sb227 3781832 YP_409199.1 CDS stpA NC_007613.1 2855811 2856215 D DNA-binding protein; H-NS-like protein; chaperone activity; possibly involved in RNA splicing; Code: R; COG: COG2916; DNA binding protein 2855811..2856215 Shigella boydii Sb227 3781833 YP_409200.1 CDS ygaP NC_007613.1 2856262 2856786 R Code: P; COG: COG0607; hypothetical protein complement(2856262..2856786) Shigella boydii Sb227 3781834 YP_409201.1 CDS SBO_2852 NC_007613.1 2856796 2857095 R Code: K; COG: COG0640; hypothetical protein complement(2856796..2857095) Shigella boydii Sb227 3781835 YP_409202.1 CDS SBO_2853 NC_007613.1 2857278 2857436 D Code: S; COG: COG0401; hypothetical protein 2857278..2857436 Shigella boydii Sb227 3781836 YP_409203.1 CDS ygaU NC_007613.1 2857520 2857969 D Code: S; COG: COG1652; LysM domain/BON superfamily protein 2857520..2857969 Shigella boydii Sb227 3781837 YP_409204.1 CDS ygaE NC_007613.1 2857970 2858632 R regulator of gab gene expression; DNA-binding transcriptional regulator CsiR complement(2857970..2858632) Shigella boydii Sb227 3781838 YP_409205.1 CDS gabP NC_007613.1 2858691 2860052 R Code: E; COG: COG1113; gamma-aminobutyrate transporter complement(2858691..2860052) Shigella boydii Sb227 3781839 YP_409206.1 CDS ygaF NC_007613.1 2863028 2864362 R catalyzed the formation of 2-ketoglutarate from 2-hydroxyglutarate; hydroxyglutarate oxidase complement(2863028..2864362) Shigella boydii Sb227 3781842 YP_409207.2 CDS SBO_2860 NC_007613.1 2864316 2865293 R in Escherichia coli this gene is induced by carbon starvation and depends on sigma S and cAMP-CRP; the structure of the Gab protein shows it is a member of non-heme iron (II)-dependent oxygenase superfamily which includes clavamini acid synthases; forms homotetramers in solution; hypothetical protein complement(2864316..2865293) Shigella boydii Sb227 3781843 YP_409208.1 CDS SBO_2861 NC_007613.1 2865629 2865901 R Code: G; COG: COG0366; hypothetical protein complement(2865629..2865901) Shigella boydii Sb227 3781844 YP_409209.1 CDS SBO_2862 NC_007613.1 2867175 2867357 R IS1 encoded protein complement(2867175..2867357) Shigella boydii Sb227 3781845 YP_409210.1 CDS insB NC_007613.1 2867450 2867953 D Code: L; COG: COG1662; IS1 ORF2 2867450..2867953 Shigella boydii Sb227 3781846 YP_409211.1 CDS SBO_2865 NC_007613.1 2868569 2868856 D hypothetical protein 2868569..2868856 Shigella boydii Sb227 3781848 YP_409212.1 CDS SBO_2866 NC_007613.1 2869045 2870163 D involved in hydrogen uptake; hydrogenase 2 small subunit 2869045..2870163 Shigella boydii Sb227 3781849 YP_409213.1 CDS hybA NC_007613.1 2870166 2871152 D Fe-S ferrodoxin type component; participates in the periplasmic electron-transferring activity of hydrogenase 2; hydrogenase 2 protein HybA 2870166..2871152 Shigella boydii Sb227 3781850 YP_409214.1 CDS hybB NC_007613.1 2871142 2872320 D HybB; cytochrome b subunit of the hydrogenase 2 enzyme, composed of HybA, B, C, and O subunits; hydrogenase 2 b cytochrome subunit 2871142..2872320 Shigella boydii Sb227 3781851 YP_409215.1 CDS hybC NC_007613.1 2872317 2874020 D involved in hydrogen uptake; hydrogenase 2 large subunit 2872317..2874020 Shigella boydii Sb227 3781852 YP_409216.1 CDS hybD NC_007613.1 2874020 2874514 D protease responsible for the cleavage of a 15 amino acid peptide from the C-terminal end of the large subunit of hydrogenase 2 (HybC); hydrogenase 2 maturation endopeptidase 2874020..2874514 Shigella boydii Sb227 3781853 YP_409217.1 CDS hybE NC_007613.1 2874507 2874995 D member of hyb operon; hydrogenase 2-specific chaperone 2874507..2874995 Shigella boydii Sb227 3781854 YP_409218.1 CDS hybF NC_007613.1 2874988 2875329 D may modulate levels of hydrogenease-2; plays a role in hydrogenase nickel cofactor insertion; hydrogenase nickel incorporation protein HybF 2874988..2875329 Shigella boydii Sb227 3781855 YP_409219.1 CDS hybG NC_007613.1 2875342 2875590 D hydrogenase-2 operon protein: may effect maturation of large subunit of hydrogenase-2; Code: O; COG: COG0298; hydrogenase 2 accessory protein HypG 2875342..2875590 Shigella boydii Sb227 3781856 YP_409220.1 CDS SBO_2874 NC_007613.1 2875713 2876627 R YghU; B2989; one of eight glutathione transferase proteins from E. coli; glutathione S-transferase complement(2875713..2876627) Shigella boydii Sb227 3781857 YP_409221.1 CDS gsp NC_007613.1 2876784 2878643 D catalyzes the formation of glutathionylspermidine from glutathione and spermidine; also catalyzes the reverse reaction; bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase 2876784..2878643 Shigella boydii Sb227 3781858 YP_409222.1 CDS insB NC_007613.1 2878889 2879392 R Code: L; COG: COG1662; IS1 ORF2 complement(2878889..2879392) Shigella boydii Sb227 3781859 YP_409223.1 CDS SBO_2877 NC_007613.1 2879472 2879675 D IS1 encoded protein 2879472..2879675 Shigella boydii Sb227 3781860 YP_409224.1 CDS ygiRQ NC_007613.1 2879726 2881945 R Code: C; COG: COG1032; hypothetical protein complement(2879726..2881945) Shigella boydii Sb227 3781861 YP_409225.1 CDS sufI NC_007613.1 2882056 2883468 R Code: Q; COG: COG2132; repressor protein for FtsI complement(2882056..2883468) Shigella boydii Sb227 3781862 YP_409226.1 CDS plsC NC_007613.1 2883543 2884280 R Code: I; COG: COG0204; 1-acyl-sn-glycerol-3-phosphate acyltransferase complement(2883543..2884280) Shigella boydii Sb227 3781863 YP_409227.1 CDS parC NC_007613.1 2884513 2886771 R decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling; DNA topoisomerase IV subunit A complement(2884513..2886771) Shigella boydii Sb227 3781864 YP_409228.1 CDS SBO_2882 NC_007613.1 2887317 2887799 R Code: L; COG: COG3449; hypothetical protein complement(2887317..2887799) Shigella boydii Sb227 3781865 YP_409229.1 CDS ygiW NC_007613.1 2887852 2888244 R Code: S; COG: COG3111; hypothetical protein complement(2887852..2888244) Shigella boydii Sb227 3781866 YP_409230.1 CDS qseB NC_007613.1 2888396 2889055 D quorum sensing Escherichia coli regulator B; response regulator in two-component regulatory system with QseC; regulates FlhCD which is the master regulator for flagella and motility genes; DNA-binding transcriptional regulator QseB 2888396..2889055 Shigella boydii Sb227 3781867 YP_409231.1 CDS qseC NC_007613.1 2889052 2890401 D quorum sensing Escherichia coli regulator C; Code: T; COG: COG0642; sensor protein QseC 2889052..2890401 Shigella boydii Sb227 3781868 YP_409232.1 CDS mdaB NC_007613.1 2890511 2891092 D Code: R; COG: COG2249; modulator of drug activity B 2890511..2891092 Shigella boydii Sb227 3781869 YP_409233.1 CDS ygiN NC_007613.1 2891123 2891437 D Code: S; COG: COG1359; hypothetical protein 2891123..2891437 Shigella boydii Sb227 3781870 YP_409234.1 CDS parE NC_007613.1 2891485 2893377 R decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling; DNA topoisomerase IV subunit B complement(2891485..2893377) Shigella boydii Sb227 3781871 YP_409235.1 CDS yqiA NC_007613.1 2893406 2893987 R Displays esterase activity toward palmitoyl-CoA and pNP-butyrate; esterase YqiA complement(2893406..2893987) Shigella boydii Sb227 3781872 YP_409236.1 CDS icc NC_007613.1 2893987 2894814 R Code: R; COG: COG1409; cyclic 3',5'-adenosine monophosphate phosphodiesterase complement(2893987..2894814) Shigella boydii Sb227 3781873 YP_409237.1 CDS yqiB NC_007613.1 2894839 2895261 R Code: S; COG: COG3151; hypothetical protein complement(2894839..2895261) Shigella boydii Sb227 3781874 YP_409238.1 CDS nudF NC_007613.1 2895262 2895891 R ADP-sugar pyrophosphatase; catalyzes the formation of D-ribose 5-phosphate from ADP-ribose; can also act on ADP-mannose and ADP-glucose; ADP-ribose pyrophosphatase NudF complement(2895262..2895891) Shigella boydii Sb227 3781875 YP_409239.2 CDS tolC NC_007613.1 2896096 2897577 D outer membrane channel; specific tolerance to colicin E1; segregation of daughter chromosomes; trimeric outer membrane protein involved in efflux of hydrophobic/amphipathic molecules; functions with a number of efflux systems in the inner membrane to transport molecules out of the cell; outer membrane channel protein 2896096..2897577 Shigella boydii Sb227 3781876 YP_409240.1 CDS ygiA NC_007613.1 2897577 2897831 D hypothetical protein 2897577..2897831 Shigella boydii Sb227 3781877 YP_409241.2 CDS ygiB NC_007613.1 2897725 2898396 D Code: S; COG: COG5463; hypothetical protein 2897725..2898396 Shigella boydii Sb227 3781878 YP_409242.1 CDS ygiC NC_007613.1 2898402 2899562 D Code: E; COG: COG0754; synthetase/amidase 2898402..2899562 Shigella boydii Sb227 3781879 YP_409243.1 CDS ygiD NC_007613.1 2899600 2900415 R seems to be involved in biofilm formation; in asymptomatic bacteriuria E. coli strains 83972 and VR50, the ygiD gene is upregulated during biofilm formation in urine; hypothetical protein complement(2899600..2900415) Shigella boydii Sb227 3781880 YP_409244.1 CDS ygiE NC_007613.1 2900531 2901292 D Code: P; COG: COG0428; zinc transporter ZupT 2900531..2901292 Shigella boydii Sb227 3781881 YP_409245.1 CDS ribB NC_007613.1 2901780 2902433 R DHBP synthase; functions during riboflavin biosynthesis; 3,4-dihydroxy-2-butanone 4-phosphate synthase complement(2901780..2902433) Shigella boydii Sb227 3781882 YP_409246.1 CDS SBO_2900 NC_007613.1 2902747 2903097 D Code: S; COG: COG2960; hypothetical protein 2902747..2903097 Shigella boydii Sb227 3781883 YP_409247.1 CDS ygiL NC_007613.1 2903381 2903959 D Code: NU; COG: COG3539; fimbrial protein 2903381..2903959 Shigella boydii Sb227 3781884 YP_409248.1 CDS SBO_2902 NC_007613.1 2903962 2904408 R Code: L; COG: COG2801; IS629 ORF2 complement(2903962..2904408) Shigella boydii Sb227 3781885 YP_409249.1 CDS SBO_2903 NC_007613.1 2904392 2904850 R Code: L; COG: COG2801; IS629 ORF2 complement(2904392..2904850) Shigella boydii Sb227 3781886 YP_409250.1 CDS SBO_2904 NC_007613.1 2904850 2905125 R Code: L; COG: COG2963; IS629 ORF1 complement(2904850..2905125) Shigella boydii Sb227 3781887 YP_409251.1 CDS insB NC_007613.1 2906782 2907285 R Code: L; COG: COG1662; IS1 ORF2 complement(2906782..2907285) Shigella boydii Sb227 3781889 YP_409252.1 CDS SBO_2907 NC_007613.1 2907544 2909172 D Code: S; COG: COG2268; hypothetical protein 2907544..2909172 Shigella boydii Sb227 3781890 YP_409253.1 CDS SBO_2908 NC_007613.1 2909966 2911399 R catalyzes the phosphorylation of D-glycero-D-manno-heptose 7-phosphate to form D,D-heptose-1,7-bisphosphate and catalyzes transfer of ADP to D-glycero-D-manno-heptose 1-phosphate forming ADP-D,D-heptose; bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase complement(2909966..2911399) Shigella boydii Sb227 3781891 YP_409254.1 CDS glnE NC_007613.1 2911447 2914287 R catalyzes the ATP-dependent addition of AMP to a subunit of glutamine synthetase; also catalyzes the reverse reaction - deadenylation; adenylation/deadenylation of glutamine synthetase subunits is important for the regulation of this enzyme; bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase complement(2911447..2914287) Shigella boydii Sb227 3781892 YP_409255.1 CDS ygiF NC_007613.1 2914310 2915611 R Code: S; COG: COG3025; hypothetical protein complement(2914310..2915611) Shigella boydii Sb227 3781893 YP_409256.1 CDS ygiM NC_007613.1 2915853 2916473 D Code: T; COG: COG3103; signal transduction protein 2915853..2916473 Shigella boydii Sb227 3781894 YP_409257.1 CDS cca NC_007613.1 2916537 2917775 D catalyzes the addition and repair of the essential 3'-terminal CCA sequence in tRNAs without using a nucleic acid template; phosphohydrolase activities include hydrolysis of pyrophosphate, 5'-nucleoside tri- and diphosphates, NADP, and 2'-AMP with the production of Pi, metal-dependent phosphodiesterase activity for 2',3'-cAMP, 2',3'-cGMP, and 2',3'-cCMP, and hydrolysis 2',3'-cyclic substrates with the formation of 2'-nucleotides and 3'-nucleotides; these phosphohydrolase activities are probably involved in the repair of the tRNA 3'-CCA terminus degraded by intracellular RNases; multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase 2916537..2917775 Shigella boydii Sb227 3781895 YP_409258.1 CDS bacA NC_007613.1 2917932 2918753 R bacitracin resistance; possibly phosphorylates undecaprenol; BacA; phosphatase activity in Escherichia coli not kinase; involved in bacitracin resistance as bacitracin supposedly sequesters undecaprenyl disphosphate which reduces the pool of lipid carrier available to the cell; undecaprenyl pyrophosphate phosphatase complement(2917932..2918753) Shigella boydii Sb227 3781896 YP_409259.1 CDS folB NC_007613.1 2918844 2919215 R catalyzes the conversion of 7,8-dihydroneopterin to 6-hydroxymethyl-7,8-dihydropterin and can also catalyze the epimerization of carbon 2' of dihydroneopterin and dihydromonapterin; bifunctional dihydroneopterin aldolase/dihydroneopterin triphosphate 2'-epimerase complement(2918844..2919215) Shigella boydii Sb227 3781897 YP_409260.1 CDS ygiH NC_007613.1 2919317 2919934 D involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsX; glycerol-3-phosphate acyltransferase PlsY 2919317..2919934 Shigella boydii Sb227 3781898 YP_409261.1 CDS insB NC_007613.1 2920655 2921158 R Code: L; COG: COG1662; IS1 ORF2 complement(2920655..2921158) Shigella boydii Sb227 3781900 YP_409262.1 CDS SBO_2918 NC_007613.1 2921233 2921469 D IS1 encoded protein 2921233..2921469 Shigella boydii Sb227 3781901 YP_409263.1 CDS ttdA NC_007613.1 2921654 2922565 D Involved in the tartrate degradation pathway; tartrate dehydratase subunit alpha 2921654..2922565 Shigella boydii Sb227 3781902 YP_409264.1 CDS ttdB NC_007613.1 2922562 2923167 D Involved in the tartrate degradation pathway; L(+)-tartrate dehydratase subunit beta 2922562..2923167 Shigella boydii Sb227 3781903 YP_409265.1 CDS ygjE NC_007613.1 2923216 2924679 D Code: P; COG: COG0471; hypothetical protein 2923216..2924679 Shigella boydii Sb227 3781904 YP_409266.1 CDS ygjD NC_007613.1 2924722 2925735 R in most organisms, only the N-terminal domain is present in a single polypeptide; in some archaea this domain is fused to a kinase domain; this gene is essential for growth in Escherichia coli and Bacillus subtilis; the secreted glycoprotease from Pasteurella haemolytica showed specificity for O-sialoglycosylated proteins; the Pyrococcus structure shows DNA-binding properties, iron-binding, ATP-binding, and AP endonuclease activity; DNA-binding/iron metalloprotein/AP endonuclease complement(2924722..2925735) Shigella boydii Sb227 3781905 YP_409267.1 CDS rpsU NC_007613.1 2925972 2926187 D a small basic protein that is one of the last in the subunit assembly; omission does not prevent assembly but the subunit is inactive; binds central domain of 16S rRNA; 30S ribosomal protein S21 2925972..2926187 Shigella boydii Sb227 3781906 YP_409268.1 CDS dnaG NC_007613.1 2926298 2928043 D DNA biosynthesis; synthesizes RNA primers at the replication forks; DNA primase 2926298..2928043 Shigella boydii Sb227 3781907 YP_409269.1 CDS rpoD NC_007613.1 2928238 2930079 D regulation of proteins induced at high temperatures; sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this is the primary sigma factor of bacteria; RNA polymerase sigma factor RpoD 2928238..2930079 Shigella boydii Sb227 3781908 YP_409270.1 CDS SBO_2926 NC_007613.1 2930164 2931510 R Code: L; COG: COG3385; IS4 orf complement(2930164..2931510) Shigella boydii Sb227 3781909 YP_409271.1 CDS ygjF NC_007613.1 2931597 2932103 R Code: L; COG: COG3663; G/U mismatch-specific DNA glycosylase complement(2931597..2932103) Shigella boydii Sb227 3781910 YP_409272.1 CDS yqjH NC_007613.1 2932357 2933121 R Code: P; COG: COG2375; hypothetical protein complement(2932357..2933121) Shigella boydii Sb227 3781912 YP_409273.1 CDS yqjI NC_007613.1 2933409 2934032 D Code: K; COG: COG1695; hypothetical protein 2933409..2934032 Shigella boydii Sb227 3781913 YP_409274.1 CDS aer NC_007613.1 2934186 2935706 R Code: NT; COG: COG0840; aerotaxis sensor receptor, flavoprotein complement(2934186..2935706) Shigella boydii Sb227 3781914 YP_409275.2 CDS ygjG NC_007613.1 2936096 2937502 D catalyzes the formation of 4-aminobutyraldehyde from putrescine and 2-oxoglutarate; putrescine--2-oxoglutarate aminotransferase 2936096..2937502 Shigella boydii Sb227 3781915 YP_409276.1 CDS ygjH NC_007613.1 2937544 2937876 R Code: R; COG: COG0073; hypothetical protein complement(2937544..2937876) Shigella boydii Sb227 3781916 YP_409277.1 CDS ebgR NC_007613.1 2938095 2939078 D Code: K; COG: COG1609; DNA-binding transcriptional repressor EbgR 2938095..2939078 Shigella boydii Sb227 3781917 YP_409278.2 CDS ebgA NC_007613.1 2939262 2942354 D cryptic gene; in Escherichia coli this is the second beta-galactosidase system; cryptic beta-D-galactosidase subunit alpha 2939262..2942354 Shigella boydii Sb227 3781918 YP_409279.1 CDS ebgC NC_007613.1 2942351 2942800 D cryptic gene; in Escherichia coli this is the second beta-galactosidase system; cryptic beta-D-galactosidase subunit beta 2942351..2942800 Shigella boydii Sb227 3781919 YP_409280.1 CDS ygjI NC_007613.1 2942863 2944296 D Code: E; COG: COG0531; oxidoreductase 2942863..2944296 Shigella boydii Sb227 3781920 YP_409281.1 CDS SBO_2938 NC_007613.1 2944480 2944752 R IS1 encoded protein complement(2944480..2944752) Shigella boydii Sb227 3781921 YP_409282.1 CDS insB NC_007613.1 2944827 2945330 D Code: L; COG: COG1662; IS1 ORF2 2944827..2945330 Shigella boydii Sb227 3781922 YP_409283.1 CDS ygjJ NC_007613.1 2945349 2946098 D hypothetical protein 2945349..2946098 Shigella boydii Sb227 3781923 YP_409284.1 CDS ygjL NC_007613.1 2948892 2950910 D Code: C; COG: COG1902; NADPH dehydrogenase 2948892..2950910 Shigella boydii Sb227 3781925 YP_409285.1 CDS ygjM NC_007613.1 2950955 2951371 R Code: K; COG: COG5499; hypothetical protein complement(2950955..2951371) Shigella boydii Sb227 3781926 YP_409286.1 CDS ygjN NC_007613.1 2951368 2951682 R Code: S; COG: COG4680; hypothetical protein complement(2951368..2951682) Shigella boydii Sb227 3781927 YP_409287.1 CDS ygjO NC_007613.1 2951967 2953103 R Code: J; COG: COG2813; hypothetical protein complement(2951967..2953103) Shigella boydii Sb227 3781928 YP_409288.1 CDS ygjP NC_007613.1 2953152 2953691 D Code: R; COG: COG1451; hypothetical protein 2953152..2953691 Shigella boydii Sb227 3781929 YP_409289.1 CDS ygjQ NC_007613.1 2953768 2954451 D Code: S; COG: COG2949; hypothetical protein 2953768..2954451 Shigella boydii Sb227 3781930 YP_409290.1 CDS ygjR NC_007613.1 2954512 2955516 D Code: R; COG: COG0673; hypothetical protein 2954512..2955516 Shigella boydii Sb227 3781931 YP_409291.1 CDS ygjT NC_007613.1 2955800 2956765 D Code: P; COG: COG0861; transporter 2955800..2956765 Shigella boydii Sb227 3781932 YP_409292.1 CDS ygjU NC_007613.1 2957381 2958625 D involved in the import of serine and threonine coupled with the import of sodium; serine/threonine transporter SstT 2957381..2958625 Shigella boydii Sb227 3781933 YP_409293.1 CDS ygjV NC_007613.1 2958630 2959181 R hypothetical protein complement(2958630..2959181) Shigella boydii Sb227 3781934 YP_409294.1 CDS uxaC NC_007613.1 2960766 2962178 R catalyzes the interconversion of D-glucuronate to D-fructuronate or D-galacturonate to D-tagaturonate; functions in glucuronic and galacturonic metabolism; glucuronate isomerase complement(2960766..2962178) Shigella boydii Sb227 3781936 YP_409295.1 CDS exuT NC_007613.1 2962541 2963959 D Code: GEPR; COG: COG0477; transport of hexuronates 2962541..2963959 Shigella boydii Sb227 3781937 YP_409296.1 CDS SBO_2955 NC_007613.1 2964047 2964679 R minor pilin and initiator complement(2964047..2964679) Shigella boydii Sb227 3781938 YP_409297.1 CDS SBO_2956 NC_007613.1 2965133 2966050 R outer membrane fimbrial user protein complement(2965133..2966050) Shigella boydii Sb227 3781939 YP_409298.1 CDS SBO_2957 NC_007613.1 2966025 2966681 R Code: L; COG: COG2801; IS2 ORF2 complement(2966025..2966681) Shigella boydii Sb227 3781940 YP_409299.1 CDS SBO_2958 NC_007613.1 2966727 2966930 R IS2 ORF2 complement(2966727..2966930) Shigella boydii Sb227 3781941 YP_409300.1 CDS SBO_2959 NC_007613.1 2967329 2967802 R fimbrial subunit complement(2967329..2967802) Shigella boydii Sb227 3781942 YP_409301.1 CDS SBO_2960 NC_007613.1 2968204 2968548 R fimbrial protein complement(2968204..2968548) Shigella boydii Sb227 3781943 YP_409302.1 CDS exuR NC_007613.1 2968844 2969620 D negative regulator of exu regulon, exuT, uxaAC, and uxuB; regulates the exuT, uxaCA and uxuRAB operons which encode genes involved in hexuronate utilization; DNA-binding transcriptional repressor ExuR 2968844..2969620 Shigella boydii Sb227 3781944 YP_409303.1 CDS yqjA NC_007613.1 2969965 2970627 D Code: S; COG: COG0586; hypothetical protein 2969965..2970627 Shigella boydii Sb227 3781945 YP_409304.1 CDS yqjB NC_007613.1 2970631 2971014 D hypothetical protein 2970631..2971014 Shigella boydii Sb227 3781946 YP_409305.1 CDS yqjC NC_007613.1 2971146 2971529 D hypothetical protein 2971146..2971529 Shigella boydii Sb227 3781947 YP_409306.1 CDS yqjD NC_007613.1 2971567 2971872 D Code: S; COG: COG4575; hypothetical protein 2971567..2971872 Shigella boydii Sb227 3781948 YP_409307.1 CDS yqjE NC_007613.1 2971875 2972279 D Code: S; COG: COG5393; hypothetical protein 2971875..2972279 Shigella boydii Sb227 3781949 YP_409308.1 CDS SBO_2967 NC_007613.1 2972269 2972568 D hypothetical protein 2972269..2972568 Shigella boydii Sb227 3781950 YP_409309.1 CDS yqjF NC_007613.1 2972664 2973146 D Code: S; COG: COG2259; hypothetical protein 2972664..2973146 Shigella boydii Sb227 3781951 YP_409310.1 CDS yqjG NC_007613.1 2973244 2974119 D Code: O; COG: COG0435; transferase 2973244..2974119 Shigella boydii Sb227 3781952 YP_409311.1 CDS yhaH NC_007613.1 2974412 2974777 D Code: S; COG: COG3152; cytochrome 2974412..2974777 Shigella boydii Sb227 3781953 YP_409312.1 CDS yhaI NC_007613.1 2975019 2975375 D Code: S; COG: COG3152; cytochrome 2975019..2975375 Shigella boydii Sb227 3781954 YP_409313.1 CDS yhaJ NC_007613.1 2975426 2976322 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(2975426..2976322) Shigella boydii Sb227 3781955 YP_409314.1 CDS yhaK NC_007613.1 2976427 2977128 D Code: R; COG: COG1741; hypothetical protein 2976427..2977128 Shigella boydii Sb227 3781956 YP_409315.1 CDS yhaL NC_007613.1 2977145 2977315 D hypothetical protein 2977145..2977315 Shigella boydii Sb227 3781957 YP_409316.1 CDS yhaNM NC_007613.1 2977449 2978759 R Code: S; COG: COG3681; hypothetical protein complement(2977449..2978759) Shigella boydii Sb227 3781958 YP_409317.1 CDS SBO_2977 NC_007613.1 2980393 2981763 R Code: E; COG: COG1760; L-serine deaminase complement(2980393..2981763) Shigella boydii Sb227 3781960 YP_409318.1 CDS yhaR NC_007613.1 2981829 2982281 R Code: J; COG: COG0251; hypothetical protein complement(2981829..2982281) Shigella boydii Sb227 3781961 YP_409319.1 CDS tdcE NC_007613.1 2982232 2984526 R Code: C; COG: COG1882; formate acetyltransferase 3 complement(2982232..2984526) Shigella boydii Sb227 3781962 YP_409320.1 CDS tdcD NC_007613.1 2984560 2985780 R catalyzes the formation of propanoyl phosphate from propanoate and ATP; TdcD also has acetate kinase activities and functions in anaerobic threonine catabolism; propionate/acetate kinase complement(2984560..2985780) Shigella boydii Sb227 3781963 YP_409321.1 CDS tdcC NC_007613.1 2985794 2987125 R involved in the import of threonine and serine in combination with the import of a proton; threonine/serine transporter TdcC complement(2985794..2987125) Shigella boydii Sb227 3781964 YP_409322.1 CDS tdcB NC_007613.1 2987147 2988136 R catalyzes the formation of 2-oxobutanoate from L-threonine; catabolic; threonine dehydratase complement(2987147..2988136) Shigella boydii Sb227 3781965 YP_409323.1 CDS tdcA NC_007613.1 2988235 2989173 R regulates the tdcABCDEFG operon which is involved in amino acid degradation; DNA-binding transcriptional activator TdcA complement(2988235..2989173) Shigella boydii Sb227 3781966 YP_409324.1 CDS tdcR NC_007613.1 2989362 2989706 D participates in controlling the expression of several structural genes for the enzyme threonine dehydratase; TdcR activates the tdcABCDEFG operon; DNA-binding transcriptional activator TdcR 2989362..2989706 Shigella boydii Sb227 3781967 YP_409325.1 CDS SBO_2985 NC_007613.1 2989998 2990288 R IS1 encoded protein complement(2989998..2990288) Shigella boydii Sb227 3781968 YP_409326.1 CDS insB NC_007613.1 2990381 2990884 D Code: L; COG: COG1662; IS1 ORF2 2990381..2990884 Shigella boydii Sb227 3781969 YP_409327.1 CDS SBO_2987 NC_007613.1 2991693 2992484 D hypothetical protein 2991693..2992484 Shigella boydii Sb227 3781970 YP_409328.1 CDS SBO_2988 NC_007613.1 2992517 2992681 D hypothetical protein 2992517..2992681 Shigella boydii Sb227 3781971 YP_409329.2 CDS yhaD NC_007613.1 2993253 2994398 R Code: G; COG: COG1929; glycerate kinase complement(2993253..2994398) Shigella boydii Sb227 3781972 YP_409330.2 CDS garR NC_007613.1 2994495 2995385 R catalyzes the reduction of tartronate semialdehyde to glycerate; tartronate semialdehyde reductase complement(2994495..2995385) Shigella boydii Sb227 3781973 YP_409331.1 CDS yhaF NC_007613.1 2995415 2996185 R cleaves 5-dehydro-4-deoxy-glucarate and 2-dehydro-3-deoxy-D-glucarate; alpha-dehydro-beta-deoxy-D-glucarate aldolase complement(2995415..2996185) Shigella boydii Sb227 3781974 YP_409332.1 CDS insB NC_007613.1 2997535 2998038 R Code: L; COG: COG1662; IS1 ORF2 complement(2997535..2998038) Shigella boydii Sb227 3781976 YP_409333.1 CDS SBO_2995 NC_007613.1 2998859 2999899 D Code: C; COG: COG0667; aldo-keto reductase 2998859..2999899 Shigella boydii Sb227 3781978 YP_409334.1 CDS yqhA NC_007613.1 2999939 3000433 R Code: S; COG: COG2862; hypothetical protein complement(2999939..3000433) Shigella boydii Sb227 3781979 YP_409335.1 CDS yghA NC_007613.1 3000624 3001508 D Code: IQR; COG: COG1028; oxidoreductase 3000624..3001508 Shigella boydii Sb227 3781980 YP_409336.1 CDS SBO_2998 NC_007613.1 3001684 3001929 D hypothetical protein 3001684..3001929 Shigella boydii Sb227 3781981 YP_409337.1 CDS exbD NC_007613.1 3001780 3002205 R uptake of enterochelin; tonB-dependent uptake of B colicins; membrane spanning protein in TonB-ExbB-ExbD complex; involved in the tonB-independent energy-dependent transport iron-siderophore complexes and vitamin B12 into the cell; biopolymer transport protein ExbD complement(3001780..3002205) Shigella boydii Sb227 3781982 YP_409338.1 CDS exbB NC_007613.1 3002212 3002946 R uptake of enterochelin; tonB-dependent uptake of B colicins; membrane spanning protein in TonB-ExbB-ExbD complex; involved in the tonB-independent energy-dependent transport iron-siderophore complexes and vitamin B12 into the cell; biopolymer transport protein ExbB complement(3002212..3002946) Shigella boydii Sb227 3781983 YP_409339.1 CDS SBO_3001 NC_007613.1 3002939 3003094 R hypothetical protein complement(3002939..3003094) Shigella boydii Sb227 3781984 YP_409340.1 CDS metC NC_007613.1 3003198 3004385 D beta-cystathionase; catalyzes the formation of L-homocysteine from cystathionine; cystathionine beta-lyase 3003198..3004385 Shigella boydii Sb227 3781985 YP_409341.1 CDS yghB NC_007613.1 3004525 3005184 D Code: S; COG: COG0586; hypothetical protein 3004525..3005184 Shigella boydii Sb227 3781986 YP_409342.1 CDS yqhC NC_007613.1 3005224 3006351 R Code: K; COG: COG2207; ARAC-type regulatory protein complement(3005224..3006351) Shigella boydii Sb227 3781988 YP_409343.1 CDS yqhD NC_007613.1 3006317 3007480 D Code: C; COG: COG1979; oxidoreductase 3006317..3007480 Shigella boydii Sb227 3781987 YP_409344.2 CDS dkgA NC_007613.1 3007585 3008412 D methylglyoxal reductase/#-keto ester reductase; catalyzes the reduction of 2,5-diketo-D-gluconic acid to 2-keto-L-gulonic acid; also catalyzes the reduction of methylglyoxal, ethyl-2-methylacetoacetate and ethyl-acetoacetate; 2,5-diketo-D-gluconate reductase A 3007585..3008412 Shigella boydii Sb227 3781989 YP_409345.1 CDS yqhG NC_007613.1 3008612 3009538 D hypothetical protein 3008612..3009538 Shigella boydii Sb227 3781990 YP_409346.1 CDS yqhH NC_007613.1 3009589 3009846 D Code: M; COG: COG4238; outer membrane lipoprotein 3009589..3009846 Shigella boydii Sb227 3781991 YP_409347.1 CDS SBO_3009 NC_007613.1 3010239 3010511 R IS1 encoded protein complement(3010239..3010511) Shigella boydii Sb227 3781992 YP_409348.1 CDS insB NC_007613.1 3010586 3011089 D Code: L; COG: COG1662; IS1 ORF2 3010586..3011089 Shigella boydii Sb227 3781993 YP_409349.1 CDS gspE NC_007613.1 3014040 3015392 D Code: NU; COG: COG2804; type II secretion protein 3014040..3015392 Shigella boydii Sb227 3781996 YP_409350.1 CDS gspF NC_007613.1 3015532 3016755 D Code: NU; COG: COG1459; type II secretion protein 3015532..3016755 Shigella boydii Sb227 3781997 YP_409351.1 CDS gspG NC_007613.1 3016772 3017227 D Code: NU; COG: COG2165; type II secretion protein 3016772..3017227 Shigella boydii Sb227 3781998 YP_409352.1 CDS gspH NC_007613.1 3017264 3017731 D type II secretion protein 3017264..3017731 Shigella boydii Sb227 3781999 YP_409353.1 CDS gspI NC_007613.1 3017791 3018162 D Code: NU; COG: COG2165; type II secretion protein 3017791..3018162 Shigella boydii Sb227 3782000 YP_409354.1 CDS gspJ NC_007613.1 3018195 3018758 D Code: U; COG: COG4795; type II secretion protein 3018195..3018758 Shigella boydii Sb227 3782001 YP_409355.1 CDS gspK NC_007613.1 3018827 3019738 D Code: U; COG: COG3156; type II secretion protein 3018827..3019738 Shigella boydii Sb227 3782002 YP_409356.1 CDS gspL NC_007613.1 3020053 3020913 D general secretion pathway for protein export (GSP); similar to general secretory pathway protein L; GspL-like protein 3020053..3020913 Shigella boydii Sb227 3782003 YP_409357.1 CDS gspM NC_007613.1 3020915 3021451 D Code: U; COG: COG3149; general secretion pathway protein YghD 3020915..3021451 Shigella boydii Sb227 3782004 YP_409358.1 CDS yqgA NC_007613.1 3021781 3022479 R Code: R; COG: COG1811; transporter complement(3021781..3022479) Shigella boydii Sb227 3782006 YP_409359.1 CDS SBO_3025 NC_007613.1 3025009 3026136 R Code: L; COG: COG3547; transposase complement(3025009..3026136) Shigella boydii Sb227 3782008 YP_409360.1 CDS nupG NC_007613.1 3026571 3027875 R transport of nucleosides, permease protein; Code: GEPR; COG: COG0477; protein NupG complement(3026571..3027875) Shigella boydii Sb227 3782009 YP_409361.1 CDS mltC NC_007613.1 3028029 3029111 R Murein hydrolase C; membrane-bound; lytic; catalyzes the cleavage of the beta-1,4-glycosidic bond between N-acetylmuramic acid and N-acetylglucosamine residues; murein transglycosylase C complement(3028029..3029111) Shigella boydii Sb227 3782010 YP_409362.1 CDS yggX NC_007613.1 3029173 3029448 R Code: CO; COG: COG2924; hypothetical protein complement(3029173..3029448) Shigella boydii Sb227 3782011 YP_409363.1 CDS mutY NC_007613.1 3029476 3030528 R G.C --> T.A transversions; Code: L; COG: COG1194; adenine DNA glycosylase complement(3029476..3030528) Shigella boydii Sb227 3782012 YP_409364.1 CDS trmB NC_007613.1 3030689 3031408 D tRNA (guanine-N(7)-)-methyltransferase; catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA by transferring the methyl residue from S-adenosyl-L-methionine; tRNA (guanine-N(7)-)-methyltransferase 3030689..3031408 Shigella boydii Sb227 3782013 YP_409365.2 CDS yggL NC_007613.1 3031408 3031734 D Code: S; COG: COG3171; hypothetical protein 3031408..3031734 Shigella boydii Sb227 3782014 YP_409366.1 CDS yggN NC_007613.1 3031918 3032637 D hypothetical protein 3031918..3032637 Shigella boydii Sb227 3782015 YP_409367.1 CDS ansB NC_007613.1 3032813 3033859 D catalyzes the formation of aspartate from asparagine, periplasmic; regulated by cyclic AMP receptor protein (CRP) and also induced by anaerobiosis; L-asparaginase II 3032813..3033859 Shigella boydii Sb227 3782016 YP_409368.1 CDS yggM NC_007613.1 3033976 3034983 D hypothetical protein 3033976..3034983 Shigella boydii Sb227 3782017 YP_409369.1 CDS yggW NC_007613.1 3035138 3036274 R catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III; coproporphyrinogen III oxidase complement(3035138..3036274) Shigella boydii Sb227 3782018 YP_409370.1 CDS yggV NC_007613.1 3036267 3036860 R HAM1-like protein; Rec-dependent growth; RgdB; yggV; it is suspected that this protein functions to remove misincorporated bases such as xanthine or hypoxanthine; deoxyribonucleotide triphosphate pyrophosphatase complement(3036267..3036860) Shigella boydii Sb227 3782019 YP_409371.2 CDS yggU NC_007613.1 3036868 3037158 R Code: S; COG: COG1872; hypothetical protein complement(3036868..3037158) Shigella boydii Sb227 3782020 YP_409372.1 CDS yggT NC_007613.1 3037155 3037721 R Code: S; COG: COG0762; resistance protein complement(3037155..3037721) Shigella boydii Sb227 3782021 YP_409373.1 CDS yggS NC_007613.1 3037739 3038443 R Code: R; COG: COG0325; hypothetical protein complement(3037739..3038443) Shigella boydii Sb227 3782023 YP_409374.1 CDS yggR NC_007613.1 3038416 3039441 D Code: NU; COG: COG2805; protein transport 3038416..3039441 Shigella boydii Sb227 3782022 YP_409375.1 CDS yqgF NC_007613.1 3039617 3040033 R similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function; Holliday junction resolvase-like protein complement(3039617..3040033) Shigella boydii Sb227 3782024 YP_409376.2 CDS yqgE NC_007613.1 3040033 3040596 R Code: K; COG: COG1678; hypothetical protein complement(3040033..3040596) Shigella boydii Sb227 3782025 YP_409377.1 CDS gshB NC_007613.1 3040705 3041655 R catalyzes the second step in the glutathione biosynthesis pathway, where it synthesizes ATP + gamma-L-glutamyl-L-cysteine + glycine = ADP + phosphate + glutathione; glutathione synthetase complement(3040705..3041655) Shigella boydii Sb227 3782026 YP_409378.2 CDS yggJ NC_007613.1 3041668 3042399 R in Escherichia coli RsmE methylates the N3 position of the U1498 base in 16S rRNA; cells lacking this function can grow, but are outcompeted by wild-type; SAM-dependent m(3)U1498 methyltransferase; 16S ribosomal RNA methyltransferase RsmE complement(3041668..3042399) Shigella boydii Sb227 3782027 YP_409379.1 CDS endA NC_007613.1 3042479 3043186 R Code: L; COG: COG2356; DNA-specific endonuclease I complement(3042479..3043186) Shigella boydii Sb227 3782028 YP_409380.1 CDS sprT NC_007613.1 3043281 3043778 R Code: S; COG: COG3091; hypothetical protein complement(3043281..3043778) Shigella boydii Sb227 3782029 YP_409381.1 CDS galP NC_007613.1 3043855 3045249 R Code: GEPR; COG: COG0477; galactose-proton symport of transport system complement(3043855..3045249) Shigella boydii Sb227 3782030 YP_409382.1 CDS metK NC_007613.1 3045685 3046839 R AdoMet synthetase; methyl and propylamine donor, corepressor of met genes; catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase; S-adenosylmethionine synthetase complement(3045685..3046839) Shigella boydii Sb227 3782031 YP_409383.1 CDS yqgC NC_007613.1 3047143 3047358 R hypothetical protein complement(3047143..3047358) Shigella boydii Sb227 3782032 YP_409384.1 CDS yqgB NC_007613.1 3047479 3047625 D hypothetical protein 3047479..3047625 Shigella boydii Sb227 3782033 YP_409385.1 CDS speA NC_007613.1 3047634 3049610 D catalyzes the formation of agmatine from arginine in putrescine and spermidine biosynthesis; arginine decarboxylase 3047634..3049610 Shigella boydii Sb227 3782034 YP_409386.1 CDS speB NC_007613.1 3049747 3050667 D catalyzes the formation of putrescine from agmatine; agmatinase 3049747..3050667 Shigella boydii Sb227 3782035 YP_409387.1 CDS yggG NC_007613.1 3050873 3051757 R Code: O; COG: COG0501; hypothetical protein complement(3050873..3051757) Shigella boydii Sb227 3782036 YP_409388.1 CDS tktA NC_007613.1 3051909 3053900 D catalyzes the formation of ribose 5-phosphate and xylulose 5-phosphate from sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate; can transfer ketol groups between several groups; in Escherichia coli there are two tkt genes, tktA expressed during exponential growth and the tktB during stationary phase; transketolase 3051909..3053900 Shigella boydii Sb227 3782037 YP_409389.1 CDS cmtB NC_007613.1 3054214 3054657 D TolM; with CmtA (IIBC), CmtB possibly forms the mannitol-like permease component of the cryptic mannitol phosphotransferase system, which phosphorylates and transports various carbohydrates and polyhydric alcohols in Escherichia coli; cytoplasmic protein; mannitol phosphotransferase subunit EIIA 3054214..3054657 Shigella boydii Sb227 3782038 YP_409390.1 CDS cmtA NC_007613.1 3054685 3056073 D Code: G; COG: COG2213; PTS system mannitol-specific transporter subunit II, cryptic 3054685..3056073 Shigella boydii Sb227 3782039 YP_409391.1 CDS SBO_3057 NC_007613.1 3056376 3057365 D Code: ER; COG: COG1063; oxidoreductase 3056376..3057365 Shigella boydii Sb227 3782040 YP_409392.1 CDS yggF NC_007613.1 3057362 3058327 D Code: G; COG: COG1494; fructose-1,6-bisphosphatase II-like protein 3057362..3058327 Shigella boydii Sb227 3782041 YP_409393.1 CDS yggD NC_007613.1 3058349 3058858 D Code: K; COG: COG3722; DNA-binding transcriptional regulator 3058349..3058858 Shigella boydii Sb227 3782042 YP_409394.1 CDS frcK NC_007613.1 3058855 3059568 D Code: H; COG: COG1072; fructose transport system kinase 3058855..3059568 Shigella boydii Sb227 3782043 YP_409395.1 CDS SBO_3061 NC_007613.1 3059540 3060250 R Code: P; COG: COG1118; ABC transporter ATP-binding protein complement(3059540..3060250) Shigella boydii Sb227 3782044 YP_409396.1 CDS SBO_3062 NC_007613.1 3060211 3060888 R Code: P; COG: COG1122; ABC transporter ATP-binding protein complement(3060211..3060888) Shigella boydii Sb227 3782045 YP_409397.1 CDS SBO_3063 NC_007613.1 3060876 3061583 R Code: P; COG: COG0619; hypothetical protein complement(3060876..3061583) Shigella boydii Sb227 3782046 YP_409398.1 CDS SBO_3064 NC_007613.1 3061584 3062162 R inner membrane protein complement(3061584..3062162) Shigella boydii Sb227 3782047 YP_409399.1 CDS SBO_3065 NC_007613.1 3062185 3062616 R Code: R; COG: COG1661; hypothetical protein complement(3062185..3062616) Shigella boydii Sb227 3782048 YP_409400.1 CDS epd NC_007613.1 3062988 3064007 D NAD-dependent; catalyzes the formation of 4-phosphoerythronate from erythrose 4-phosphate in the biosynthesis of pyridoxine 5'-phosphate; erythrose 4-phosphate dehydrogenase 3062988..3064007 Shigella boydii Sb227 3782049 YP_409401.1 CDS pgk NC_007613.1 3064057 3065220 D Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway; phosphoglycerate kinase 3064057..3065220 Shigella boydii Sb227 3782050 YP_409402.1 CDS fba NC_007613.1 3065435 3066514 D class II; catalyzes the formation of glycerone phosphate and glyceraldehyde 3-phosphate from fructose 1,6, bisphosphate; fructose-bisphosphate aldolase 3065435..3066514 Shigella boydii Sb227 3782051 YP_409403.1 CDS yggB NC_007613.1 3066872 3067732 D participates in the regulation of osmotic pressure changes within the cel; mechanosensitive channel MscS 3066872..3067732 Shigella boydii Sb227 3782052 YP_409404.1 CDS yggA NC_007613.1 3067871 3068506 D Involved in the export of arginine; arginine exporter protein 3067871..3068506 Shigella boydii Sb227 3782053 YP_409405.1 CDS yggE NC_007613.1 3068599 3069339 D Code: S; COG: COG2968; hypothetical protein 3068599..3069339 Shigella boydii Sb227 3782054 YP_409406.1 CDS SBO_3072 NC_007613.1 3069527 3070723 R Code: L; COG: COG3547; ISSfl2 ORF complement(3069527..3070723) Shigella boydii Sb227 3782055 YP_409407.1 CDS ygfI NC_007613.1 3070956 3071852 D Code: K; COG: COG0583; LysR family transcriptional regulator 3070956..3071852 Shigella boydii Sb227 3782056 YP_409408.1 CDS ygfH NC_007613.1 3071849 3073327 R Code: C; COG: COG0427; coenzyme A transferase complement(3071849..3073327) Shigella boydii Sb227 3782057 YP_409409.2 CDS ygfG NC_007613.1 3073351 3074136 R catalyzes the formation of propanoyl-CoA from methylmalonyl-CoA; methylmalonyl-CoA decarboxylase complement(3073351..3074136) Shigella boydii Sb227 3782058 YP_409410.1 CDS ygfD NC_007613.1 3074147 3075142 R functions in transport of arginine/ornithine; inner membrane ATPase that cleaves ATP and phosphorylates two periplasmic proteins that function as two distinct transport systems, the AO (arginine and ornithine) and LAO (lysine, arginine, and ornithine) periplasmic binding proteins; arginine/ornithine transport system ATPase complement(3074147..3075142) Shigella boydii Sb227 3782059 YP_409411.1 CDS iciA NC_007613.1 3077483 3078376 R binds to 13-mers at oriC; specific inhibitor of chromosomal initiation of replication in vitro; binds the three 13-mers in the origin (oriC) to block initiation of replication; also controls genes involved in arginine transport; chromosome replication initiation inhibitor protein complement(3077483..3078376) Shigella boydii Sb227 3782061 YP_409412.1 CDS rpiA NC_007613.1 3078759 3079418 D Catalyzes D-ribose 5-phosphate --> D-ribulose 5-phosphate in the nonoxidative branch of the pentose phosphate pathway; ribose-5-phosphate isomerase A 3078759..3079418 Shigella boydii Sb227 3782062 YP_409413.1 CDS serA NC_007613.1 3079673 3080905 D catalyzes the formation of 3-phosphonooxypyruvate from 3-phospho-D-glycerate in serine biosynthesis; can also reduce alpha ketoglutarate to form 2-hydroxyglutarate; D-3-phosphoglycerate dehydrogenase 3079673..3080905 Shigella boydii Sb227 3782063 YP_409414.1 CDS ygfA NC_007613.1 3081686 3082234 R ygfA expression increases five to eight fold in Escherichia coli cells growing as biofilms; unknown function; ligase complement(3081686..3082234) Shigella boydii Sb227 3782064 YP_409415.1 CDS ygfE NC_007613.1 3082534 3082863 R Code: S; COG: COG3027; Z-ring-associated protein complement(3082534..3082863) Shigella boydii Sb227 3782065 YP_409416.2 CDS ygfB NC_007613.1 3083031 3083609 D the crystal structure of Haemophilus influenzae HI0817 showed that this protein forms dimers; function unknown; hypothetical protein 3083031..3083609 Shigella boydii Sb227 3782066 YP_409417.1 CDS pepP NC_007613.1 3083635 3084960 D exopeptidase able to cleave the peptide bond of the last amino acid if linked to a proline residue; substrate can be as short as a dipeptide; proline aminopeptidase P II 3083635..3084960 Shigella boydii Sb227 3782067 YP_409418.1 CDS ubiH NC_007613.1 3084957 3086135 D 2-octaprenyl-6-methoxyphenol--> 2-octaprenyl-6-methoxy-1, 4-benzoquinone; Oxygenase that introduces the hydroxyl group at carbon four of 2-octaprenyl-6-methoxyphenol resulting in the formation of 2-octaprenyl-6-methoxy-1,4-benzoquinone; 2-octaprenyl-6-methoxyphenyl hydroxylase 3084957..3086135 Shigella boydii Sb227 3782068 YP_409419.1 CDS visC NC_007613.1 3086158 3087360 D Code: HC; COG: COG0654; hypothetical protein 3086158..3087360 Shigella boydii Sb227 3782069 YP_409420.1 CDS gcvT NC_007613.1 3087807 3088901 D T protein; tetrahydrofolate-dependent; catalyzes the transfer of a methylene carbon from the methylamine-loaded GcvH protein to tetrahydrofolate, causing the release of ammonia and the generation of reduced GcvH protein; glycine cleavage system aminomethyltransferase T 3087807..3088901 Shigella boydii Sb227 3782070 YP_409421.1 CDS gcvH NC_007613.1 3088925 3089314 D in glycine cleavage complex, carrier of aminomethyl moiety via covalently bound lipoyl cofactor; part of multienzyme complex composed of H, L, P, and T proteins which catalyzes oxidation of glycine to yield carbon dioxide, ammonia, 5,10-CH2-H4folate and a reduced pyridine nucleotide; protein H is involved in transfer of methylamine group from the P to T protein; covalently bound to a lipoyl cofactor; glycine cleavage system protein H 3088925..3089314 Shigella boydii Sb227 3782071 YP_409422.1 CDS gcvP NC_007613.1 3089433 3092306 D P protein of glycine cleavage system; acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine; glycine dehydrogenase 3089433..3092306 Shigella boydii Sb227 3782072 YP_409423.1 CDS bglA NC_007613.1 3093372 3094811 R Code: G; COG: COG2723; 6-phospho-beta-glucosidase complement(3093372..3094811) Shigella boydii Sb227 3782074 YP_409424.1 CDS yqfB NC_007613.1 3094850 3095161 D Code: S; COG: COG3097; hypothetical protein 3094850..3095161 Shigella boydii Sb227 3782075 YP_409425.1 CDS SBO_3093 NC_007613.1 3095325 3095984 D Code: R; COG: COG1272; oxidoreductase 3095325..3095984 Shigella boydii Sb227 3782076 YP_409426.1 CDS ygfZ NC_007613.1 3096180 3097160 R physiological role is not clear; not essential for growth but mutants grow poorly; mutations suppress hda null mutations; may be involved in regulation of ATP-DnaA levels; may also be involved in regulation of tRNA modifications; can bind folic acid and tetrahydrofolate; forms a three domain ring-like structure with a central channel; structurally similar to DMGO protein from A. globiformis; shows sequence similarity to yeast CAF17 transcriptional regulator; global regulator complement(3096180..3097160) Shigella boydii Sb227 3782077 YP_409427.1 CDS ygfY NC_007613.1 3097403 3097669 D Code: S; COG: COG2938; hypothetical protein 3097403..3097669 Shigella boydii Sb227 3782078 YP_409428.1 CDS SBO_3096 NC_007613.1 3097650 3098057 D hypothetical protein 3097650..3098057 Shigella boydii Sb227 3782079 YP_409429.1 CDS fldB NC_007613.1 3098097 3098618 R An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic; flavodoxin FldB complement(3098097..3098618) Shigella boydii Sb227 3782080 YP_409430.1 CDS xerD NC_007613.1 3098730 3099626 D site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; forms a heterotetrameric complex with XerC; XerCD exhibit similar sequences; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; XerD specifically exchanges the bottom strands; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs; site-specific tyrosine recombinase XerD 3098730..3099626 Shigella boydii Sb227 3782081 YP_409431.1 CDS dsbC NC_007613.1 3099651 3100361 D DsbC; periplasmic protein with protein disulfide isomerase activity; this protein also shows disulfide oxidoreductase activity; thiol:disulfide interchange protein DsbC 3099651..3100361 Shigella boydii Sb227 3782082 YP_409432.1 CDS recJ NC_007613.1 3100367 3102100 D 5' --> 3' specific; 5'-3' single-stranded-DNA-specific exonuclease; ssDNA exonuclease RecJ 3100367..3102100 Shigella boydii Sb227 3782083 YP_409433.1 CDS prfB NC_007613.1 3102408 3103289 D Code: J; COG: COG1186; peptide chain release factor RF-2 3102408..3103289 Shigella boydii Sb227 3782084 YP_409434.1 CDS lysS NC_007613.1 3103299 3104816 D suppressor of ColE1 mutation in primer RNA; class II; LysRS2; catalyzes a two-step reaction, first charging a lysine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; in Methanosarcina barkeri, LysRS2 charges both tRNA molecules for lysine that exist in this organism and in addition can charge the tRNAPyl with lysine in the presence of LysRS1; lysyl-tRNA synthetase 3103299..3104816 Shigella boydii Sb227 3782085 YP_409435.1 CDS SBO_3103 NC_007613.1 3104859 3105407 R catalyzes the rearrangement of isopentenyl diphosphate to dimethylallyl phosphate; isopentenyl-diphosphate delta-isomerase complement(3104859..3105407) Shigella boydii Sb227 3782086 YP_409436.1 CDS ygfU NC_007613.1 3105657 3107174 R Code: F; COG: COG2233; permease complement(3105657..3107174) Shigella boydii Sb227 3782087 YP_409437.1 CDS insB NC_007613.1 3107508 3108011 R Code: L; COG: COG1662; IS1 ORF2 complement(3107508..3108011) Shigella boydii Sb227 3782088 YP_409438.1 CDS SBO_3106 NC_007613.1 3108104 3108286 D IS1 encoded protein 3108104..3108286 Shigella boydii Sb227 3782089 YP_409439.1 CDS ygfJ NC_007613.1 3108575 3109153 R Code: R; COG: COG2068; hypothetical protein complement(3108575..3109153) Shigella boydii Sb227 3782090 YP_409440.1 CDS SBO_3108 NC_007613.1 3109319 3110026 D hypothetical protein 3109319..3110026 Shigella boydii Sb227 3782091 YP_409441.1 CDS SBO_3109 NC_007613.1 3110074 3111699 D Code: O; COG: COG1975; synthase 3110074..3111699 Shigella boydii Sb227 3782092 YP_409442.1 CDS yqeA NC_007613.1 3111740 3112672 R catalyzes the reversible synthesis of carbamate and ATP from carbamoyl phosphate and ADP; carbamate kinase complement(3111740..3112672) Shigella boydii Sb227 3782093 YP_409443.2 CDS SBO_3111 NC_007613.1 3112720 3114105 R catalyzes the hydrolytic cleavage of hydantoin with aromatic side chains at the 5'position; phenylhydantoinase complement(3112720..3114105) Shigella boydii Sb227 3782094 YP_409444.1 CDS ygeY NC_007613.1 3114158 3115369 R Zn-dependent extracellular dipeptidase; similar to succinyl-diaminopimelate desuccinylases; peptidase complement(3114158..3115369) Shigella boydii Sb227 3782095 YP_409445.1 CDS ygeX NC_007613.1 3115427 3116623 R catalyzes the formation of pyruvate from 2,3-diaminopropionate; diaminopropionate ammonia-lyase complement(3115427..3116623) Shigella boydii Sb227 3782096 YP_409446.1 CDS SBO_3114 NC_007613.1 3116859 3117134 D Code: L; COG: COG2963; IS629 ORF1 3116859..3117134 Shigella boydii Sb227 3782097 YP_409447.1 CDS SBO_3115 NC_007613.1 3117134 3118021 D Code: L; COG: COG2801; IS629 ORF2 3117134..3118021 Shigella boydii Sb227 3782098 YP_409448.1 CDS SBO_3117 NC_007613.1 3120567 3121046 R iron-sulfur-binding subunit; with XdhA and XdhB participates in purine salvage; xanthine dehydrogenase subunit XdhC complement(3120567..3121046) Shigella boydii Sb227 3782100 YP_409449.1 CDS ygeT NC_007613.1 3121043 3121921 R FAD-binding subunit; with XdhA and XdhC participates in purine salvage; xanthine dehydrogenase subunit XdhB complement(3121043..3121921) Shigella boydii Sb227 3782101 YP_409450.1 CDS SBO_3119 NC_007613.1 3121932 3124190 R molybdenum cofactor-binding protein; participates in purine salvage; xanthine dehydrogenase subunit XdhA complement(3121932..3124190) Shigella boydii Sb227 3782102 YP_409451.2 CDS SBO_3120 NC_007613.1 3124875 3125780 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 3124875..3125780 Shigella boydii Sb227 3782103 YP_409452.1 CDS SBO_3121 NC_007613.1 3125956 3126735 D Code: M; COG: COG0739; lipoprotein 3125956..3126735 Shigella boydii Sb227 3782104 YP_409453.1 CDS SBO_3123 NC_007613.1 3128012 3128179 R IS1 encoded protein complement(3128012..3128179) Shigella boydii Sb227 3782106 YP_409454.1 CDS insB NC_007613.1 3128272 3128775 D Code: L; COG: COG1662; IS1 ORF2 3128272..3128775 Shigella boydii Sb227 3782107 YP_409455.1 CDS SBO_3125 NC_007613.1 3128857 3129501 D Code: G; COG: COG1879; ribose ABC transporter 3128857..3129501 Shigella boydii Sb227 3782108 YP_409456.1 CDS SBO_3126 NC_007613.1 3129532 3131061 D Code: G; COG: COG1129; ribose ABC transporter ATP-binding protein 3129532..3131061 Shigella boydii Sb227 3782109 YP_409457.1 CDS SBO_3127 NC_007613.1 3131062 3131811 D Code: G; COG: COG1172; ribose ABC transporter permease 3131062..3131811 Shigella boydii Sb227 3782110 YP_409458.1 CDS SBO_3128 NC_007613.1 3131824 3132051 D hypothetical protein 3131824..3132051 Shigella boydii Sb227 3782111 YP_409459.1 CDS SBO_3129 NC_007613.1 3132073 3133035 D Code: G; COG: COG0524; carbohydrate kinase 3132073..3133035 Shigella boydii Sb227 3782112 YP_409460.1 CDS SBO_3130 NC_007613.1 3133032 3133664 D hypothetical protein 3133032..3133664 Shigella boydii Sb227 3782113 YP_409461.1 CDS SBO_3131 NC_007613.1 3133651 3134079 D hypothetical protein 3133651..3134079 Shigella boydii Sb227 3782114 YP_409462.1 CDS accC NC_007613.1 3134171 3135520 R an AccC homodimer forms the biotin carboxylase subunit of the acetyl CoA carboxylase, an enzyme that catalyzes the formation of malonyl-CoA, which in turn controls the rate of fatty acid metabolism; acetyl-CoA carboxylase biotin carboxylase subunit complement(3134171..3135520) Shigella boydii Sb227 3782115 YP_409463.1 CDS accB NC_007613.1 3135531 3136001 R carrier of biotin; composes the biotin carboxyl carrier protein subunit of the acetyl-CoA carboxylase complex, the enzyme that catalyzes the carboxylation of acetyl-CoA to malonyl-CoA, which in turn controls the rate of fatty acid metabolism; acetyl-CoA carboxylase biotin carboxyl carrier protein subunit complement(3135531..3136001) Shigella boydii Sb227 3782116 YP_409464.1 CDS SBO_3134 NC_007613.1 3136820 3136921 D hypothetical protein 3136820..3136921 Shigella boydii Sb227 3782117 YP_409465.1 CDS yhdH NC_007613.1 3136979 3137953 R Code: CR; COG: COG0604; dehydrogenase complement(3136979..3137953) Shigella boydii Sb227 3782118 YP_409466.1 CDS yhdA NC_007613.1 3138105 3140045 D regulates the degradation of the small RNAs CsrB and CsrC; may function to targate RNase E to specific RNA molecules; regulatory protein CsrD 3138105..3140045 Shigella boydii Sb227 3782119 YP_409467.2 CDS mreB NC_007613.1 3140350 3141393 D regulator of ftsI; septation function; functions in MreBCD complex in some organisms; rod shape-determining protein MreB 3140350..3141393 Shigella boydii Sb227 3782120 YP_409468.1 CDS mreC NC_007613.1 3141459 3142544 D in some organisms this protein is a transmembrane protein while in others it is periplasmic; involved in some organisms with other components of the MreBCD complex and with penicillin binding proteins in the periplasm or cell wall; rod shape-determining protein MreC 3141459..3142544 Shigella boydii Sb227 3782121 YP_409469.1 CDS mreD NC_007613.1 3142544 3143032 D part of cell wall structural complex MreBCD; transmembrane component; rod shape-determining protein MreD 3142544..3143032 Shigella boydii Sb227 3782122 YP_409470.1 CDS yhdE NC_007613.1 3143041 3143634 D Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell; Maf-like protein 3143041..3143634 Shigella boydii Sb227 3782123 YP_409471.2 CDS cafA NC_007613.1 3143624 3145093 D involved in the processing of the 5'end of 16S rRNA; ribonuclease G 3143624..3145093 Shigella boydii Sb227 3782124 YP_409472.1 CDS yhdRP NC_007613.1 3145161 3148961 D Code: S; COG: COG3164; hypothetical protein 3145161..3148961 Shigella boydii Sb227 3782125 YP_409473.1 CDS tldD NC_007613.1 3149117 3150562 D responsible for the proteolytic maturation of the E. coli pMccB17 plasmid-encoded microcin B17, an exported protein that targets the essential topoisomerase II DNA gyrase; degrades the E. coli plasmid F-encoded CcdA; protease TldD 3149117..3150562 Shigella boydii Sb227 3782126 YP_409474.1 CDS qseA NC_007613.1 3150690 3151619 R quorum sensing Escherichia coli regulator A; Code: K; COG: COG0583; DNA-binding transcriptional regulator complement(3150690..3151619) Shigella boydii Sb227 3782127 YP_409475.2 CDS SBO_3145 NC_007613.1 3151672 3152577 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(3151672..3152577) Shigella boydii Sb227 3782128 YP_409476.1 CDS SBO_3146 NC_007613.1 3152535 3152900 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(3152535..3152900) Shigella boydii Sb227 3782129 YP_409477.2 CDS yhcR NC_007613.1 3153138 3153341 D membrane protein AaeX; the gene is a member of the aaeXAB operon; hypothetical protein 3153138..3153341 Shigella boydii Sb227 3782130 YP_409478.1 CDS yhcP NC_007613.1 3154287 3156254 D with AaeA forms an efflux pump whose substrates are p-hydroxybenzoic acid 6-hydroxy-2-naphthoic and 2-hydroxycinnamate; p-hydroxybenzoic acid efflux subunit AaeB 3154287..3156254 Shigella boydii Sb227 3782132 YP_409479.1 CDS yhcO NC_007613.1 3156346 3156618 D Code: K; COG: COG2732; hypothetical protein 3156346..3156618 Shigella boydii Sb227 3782133 YP_409480.1 CDS yhcN NC_007613.1 3156674 3156988 R hypothetical protein complement(3156674..3156988) Shigella boydii Sb227 3782134 YP_409481.1 CDS argR NC_007613.1 3157303 3157773 R repressor of arg regulon; cer-mediated site-specific recombination; regulates arginine biosynthesis when complexed with arginine by binding at site that overlap the promotors of the arginine biosynthesis genes; arginine repressor complement(3157303..3157773) Shigella boydii Sb227 3782135 YP_409482.1 CDS mdh NC_007613.1 3158208 3159146 D oxidizes malate to oxaloacetate; malate dehydrogenase 3158208..3159146 Shigella boydii Sb227 3782136 YP_409483.1 CDS degS NC_007613.1 3159209 3160276 R Code: O; COG: COG0265; serine endoprotease complement(3159209..3160276) Shigella boydii Sb227 3782137 YP_409484.1 CDS degQ NC_007613.1 3160366 3161733 R Code: O; COG: COG0265; serine endoprotease complement(3160366..3161733) Shigella boydii Sb227 3782138 YP_409485.1 CDS yhcB NC_007613.1 3161887 3162291 R Code: S; COG: COG3105; cytochrome d ubiquinol oxidase subunit III complement(3161887..3162291) Shigella boydii Sb227 3782139 YP_409486.1 CDS yhcM NC_007613.1 3162479 3163606 D Code: R; COG: COG1485; hypothetical protein 3162479..3163606 Shigella boydii Sb227 3782140 YP_409487.1 CDS rplM NC_007613.1 3163824 3164252 D in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit; 50S ribosomal protein L13 3163824..3164252 Shigella boydii Sb227 3782141 YP_409488.1 CDS rpsI NC_007613.1 3164268 3164660 D forms a direct contact with the tRNA during translation; 30S ribosomal protein S9 3164268..3164660 Shigella boydii Sb227 3782142 YP_409489.1 CDS sspA NC_007613.1 3165055 3165693 D regulator of transcription; transcriptional activator; required for activation of bacteriophage P1 late promoter; induced by starvation; stringent starvation protein A 3165055..3165693 Shigella boydii Sb227 3782143 YP_409490.1 CDS sspB NC_007613.1 3165699 3166196 D Code: R; COG: COG2969; ClpXP protease specificity-enhancing factor 3165699..3166196 Shigella boydii Sb227 3782144 YP_409491.1 CDS yhcK NC_007613.1 3167985 3168776 D Transcriptional repressor of the nan operon that encodes proteins involved in sialic acid utilization; transcriptional regulator NanR 3167985..3168776 Shigella boydii Sb227 3782146 YP_409492.1 CDS nanA NC_007613.1 3168898 3169791 D aldolase; catabolism of sialic acid; not K12?; catalyzes the formation of pyruvate and N-acetylmannosamine from N-acetylneuraminic acid; N-acetylneuraminate lyase 3168898..3169791 Shigella boydii Sb227 3782147 YP_409493.2 CDS nanT NC_007613.1 3169900 3171390 D Code: GEPR; COG: COG0477; sialic acid transporter 3169900..3171390 Shigella boydii Sb227 3782148 YP_409494.1 CDS yhcJ NC_007613.1 3171438 3172127 D Converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate; N-acetylmannosamine-6-phosphate 2-epimerase 3171438..3172127 Shigella boydii Sb227 3782149 YP_409495.2 CDS yhcI NC_007613.1 3172124 3172999 D catalyzes the phosphorylation of the N-acetylmannosamine (ManNAc) liberated from N-acetyl-neuraminic acid by the nanA protein; N-acetylmannosamine kinase 3172124..3172999 Shigella boydii Sb227 3782150 YP_409496.1 CDS yhcH NC_007613.1 3172996 3173460 D Code: G; COG: COG2731; hypothetical protein 3172996..3173460 Shigella boydii Sb227 3782151 YP_409497.1 CDS gltD NC_007613.1 3174521 3175939 R glutamate synthase is composed of subunits alpha and beta; beta subunit is a flavin adenine dinucleotide-NADPH dependent oxidoreductase; provides electrons to the alpha subunit, which binds L-glutamine and 2-oxoglutarate and forms L-glutamate; glutamate synthase subunit beta complement(3174521..3175939) Shigella boydii Sb227 3782152 YP_409498.1 CDS gltB NC_007613.1 3175952 3180505 R catalyzes the formation of glutamate from glutamine and alpha-ketoglutarate; glutamate synthase subunit alpha complement(3175952..3180505) Shigella boydii Sb227 3782153 YP_409499.1 CDS yhcC NC_007613.1 3181087 3182016 D Code: R; COG: COG1242; hypothetical protein 3181087..3182016 Shigella boydii Sb227 3782154 YP_409500.1 CDS arcB NC_007613.1 3182112 3184448 D histidine protein kinase/phosphatase, sensor for arcA; sensor-regulator protein which regulates the expression of many genes in response to respiratory growth conditions including anaerobic repression of the arc modulon; hybrid sensory histidine kinase in two-component regulatory system with ArcA; aerobic respiration control sensor protein ArcB 3182112..3184448 Shigella boydii Sb227 3782155 YP_409501.1 CDS yhbL NC_007613.1 3184669 3185331 D SCRP-27A; Code: Q; COG: COG3155; isoprenoid biosynthesis protein 3184669..3185331 Shigella boydii Sb227 3782156 YP_409502.1 CDS mtgA NC_007613.1 3185328 3186056 D glycosyltransferase; polymerizes glycan strands in the peptidoglycan; monofunctional biosynthetic peptidoglycan transglycosylase 3185328..3186056 Shigella boydii Sb227 3782157 YP_409503.1 CDS yrbL NC_007613.1 3186053 3186685 R hypothetical protein complement(3186053..3186685) Shigella boydii Sb227 3782158 YP_409504.1 CDS ptsO NC_007613.1 3186899 3187171 R nitrogen-related; exchanges phosphate with Enzyme I, Hpr; Code: G; COG: COG1925; PTS system phosphohistidinoprotein-hexose phosphotransferase Npr complement(3186899..3187171) Shigella boydii Sb227 3782159 YP_409505.1 CDS yhbJ NC_007613.1 3187168 3188022 R Code: R; COG: COG1660; hypothetical protein complement(3187168..3188022) Shigella boydii Sb227 3782160 YP_409506.1 CDS ptsN NC_007613.1 3188068 3188559 R regulates N metabolism; Code: GT; COG: COG1762; PTS system transporter subunit IIA-like nitrogen-regulatory protein PtsN complement(3188068..3188559) Shigella boydii Sb227 3782161 YP_409507.1 CDS rpoN NC_007613.1 3188987 3190420 R RNA polymerase sigma(54 or 60) factor; nitrogen and fermentation regulation; sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; sigma 54 factor is responsible for the expression of enzymes involved in nitrogen assimilation and metabolism; the rhizobia often have 2 copies of this sigma factor; in Rhizobium etli RpoN1 shown to be involved in the assimilation of several nitrogen and carbon sources during free-living aerobic growth and RpoN2 is involved in symbiotic nitrogen fixation; in Bradyrhizobium both RpoN1 and N2 are functional in free-living and symbiotic conditions, rpoN1 gene was regulated in response to oxygen; RNA polymerase factor sigma-54 complement(3188987..3190420) Shigella boydii Sb227 3782163 YP_409508.1 CDS yhbG NC_007613.1 3190468 3191193 R Code: R; COG: COG1137; ABC transporter ATP-binding protein complement(3190468..3191193) Shigella boydii Sb227 3782164 YP_409509.1 CDS yhbN NC_007613.1 3191200 3191757 R LptA; periplasmic binding protein part of a ABC superfamily of uptake transporters; interacts with LptB protein, the ATP binding component of the uptake system; lipopolysaccharide transport periplasmic protein LptA complement(3191200..3191757) Shigella boydii Sb227 3782165 YP_409510.1 CDS yrbK NC_007613.1 3191726 3192301 R Code: S; COG: COG3117; hypothetical protein complement(3191726..3192301) Shigella boydii Sb227 3782166 YP_409511.1 CDS yrbI NC_007613.1 3192298 3192864 R forms homotetramers; catalyzes hydrolysis of KDO 8-P to KDO and inorganic phosphate; functions in lipopolysaccharide biosynthesis; 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase complement(3192298..3192864) Shigella boydii Sb227 3782167 YP_409512.1 CDS yrbH NC_007613.1 3192885 3193871 R Code: M; COG: COG0794; D-arabinose 5-phosphate isomerase complement(3192885..3193871) Shigella boydii Sb227 3782168 YP_409513.1 CDS yrbG NC_007613.1 3193885 3194862 R YrbG; inner membrane protein involved in cell envelope integrity; sodium ion/calcium ion exchanger; in E. coli it is non essential for cell viability; member of the YRBG family of cation/Ca2+ exchangers; calcium/sodium:proton antiporter complement(3193885..3194862) Shigella boydii Sb227 3782169 YP_409514.1 CDS yrbF NC_007613.1 3195072 3195881 D ATP-binding subunit of a ABC toluene efflux transporter; ABC transporter ATP-binding protein 3195072..3195881 Shigella boydii Sb227 3782170 YP_409515.1 CDS yrbE NC_007613.1 3195889 3196671 D Code: Q; COG: COG0767; hypothetical protein 3195889..3196671 Shigella boydii Sb227 3782171 YP_409516.1 CDS yrbD NC_007613.1 3196676 3197227 D Code: Q; COG: COG1463; hypothetical protein 3196676..3197227 Shigella boydii Sb227 3782172 YP_409517.1 CDS yrbC NC_007613.1 3197246 3197881 D Code: Q; COG: COG2854; hypothetical protein 3197246..3197881 Shigella boydii Sb227 3782173 YP_409518.1 CDS yrbB NC_007613.1 3197785 3198174 D Code: R; COG: COG3113; hypothetical protein 3197785..3198174 Shigella boydii Sb227 3782174 YP_409519.1 CDS yrbA NC_007613.1 3198318 3198587 D Code: K; COG: COG5007; hypothetical protein 3198318..3198587 Shigella boydii Sb227 3782175 YP_409520.1 CDS murA NC_007613.1 3198642 3199901 D first step in murein biosynthesis; adds enolpyruvyl to UDP-N-acetylglucosamine as a component of cell wall formation; gram-positive bacteria have 2 copies of MurA which are active; UDP-N-acetylglucosamine 1-carboxyvinyltransferase 3198642..3199901 Shigella boydii Sb227 3782176 YP_409521.1 CDS nlp NC_007613.1 3199949 3200227 R similar to Ner repressor protein of phage Mu; activator of maltose metabolism genes; DNA-binding transcriptional regulator Nlp complement(3199949..3200227) Shigella boydii Sb227 3782177 YP_409522.1 CDS ispB NC_007613.1 3200456 3201427 R Code: H; COG: COG0142; octaprenyl diphosphate synthase complement(3200456..3201427) Shigella boydii Sb227 3782178 YP_409523.1 CDS rplU NC_007613.1 3201685 3201996 D Code: J; COG: COG0261; 50S ribosomal protein L21 3201685..3201996 Shigella boydii Sb227 3782179 YP_409524.1 CDS rpmA NC_007613.1 3202017 3202274 D involved in the peptidyltransferase reaction during translation; 50S ribosomal protein L27 3202017..3202274 Shigella boydii Sb227 3782180 YP_409525.1 CDS yhbE NC_007613.1 3202401 3203366 D Code: GER; COG: COG0697; hypothetical protein 3202401..3203366 Shigella boydii Sb227 3782181 YP_409526.1 CDS obgE NC_007613.1 3203382 3204554 D essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication; GTPase ObgE 3203382..3204554 Shigella boydii Sb227 3782182 YP_409527.1 CDS dacB NC_007613.1 3204594 3206027 R penicillin-binding protein 4; penicillin binding protein 4; penicillin sensitive; catalyzes the formation of D-alanine from D-alanyl-D-alanine; one of four, DD-carboxypeptidase low-molecular weight penicillin-binding proteins that remove terminal D-alanine from pentapeptide side chains; D-alanyl-D-alanine carboxypeptidase complement(3204594..3206027) Shigella boydii Sb227 3782183 YP_409528.2 CDS greA NC_007613.1 3206275 3206751 D cleaves 3' nucleotide of paused mRNA; necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites; arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus; transcription elongation factor GreA 3206275..3206751 Shigella boydii Sb227 3782184 YP_409529.1 CDS yhbY NC_007613.1 3206908 3207201 R RNA binding protein found associated to pre-50S subunit of the ribosome; role in ribosome assembly; necessary for optimal growth but not cell viability; RNA-binding protein YhbY complement(3206908..3207201) Shigella boydii Sb227 3782185 YP_409530.1 CDS rrmJ NC_007613.1 3207327 3207956 D Specifically methylates the uridine in position 2552 of 23S rRNA in the fully assembled 50S ribosomal subunit; 23S rRNA methyltransferase J 3207327..3207956 Shigella boydii Sb227 3782186 YP_409531.1 CDS hflB NC_007613.1 3208056 3209990 D degrades sigma32, integral membrane peptidase, cell division protein; inner membrane metalloprotease; may be involved in degradation of aberrant cytoplasmic and membrane proteins; ATP-dependent metalloprotease 3208056..3209990 Shigella boydii Sb227 3782187 YP_409532.2 CDS folP NC_007613.1 3210080 3210928 D catalyzes the formation of dihydropteroate from 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine diphosphate and 4-aminobenzoate; dihydropteroate synthase 3210080..3210928 Shigella boydii Sb227 3782188 YP_409533.1 CDS glmM NC_007613.1 3210921 3212258 D similar to phosphoglucomutases and phosphomannomutases; catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate; phosphoglucosamine mutase 3210921..3212258 Shigella boydii Sb227 3782189 YP_409534.1 CDS secG NC_007613.1 3212486 3212818 D protein export - membrane protein; Code: U; COG: COG1314; preprotein translocase subunit SecG 3212486..3212818 Shigella boydii Sb227 3782190 YP_409535.1 CDS yhbX NC_007613.1 3213360 3215003 D Code: R; COG: COG2194; alkaline phosphatase I 3213360..3215003 Shigella boydii Sb227 3782192 YP_409536.1 CDS argG NC_007613.1 3215011 3216354 R catalyzes the formation of arginosuccinate from citrulline and aspartate in arginine biosynthesis; argininosuccinate synthase complement(3215011..3216354) Shigella boydii Sb227 3782193 YP_409537.2 CDS yhbC NC_007613.1 3216985 3217437 D in Streptococcus pneumoniae this gene was found to be essential; structure determination of the Streptococcus protein shows that it is similar to a number of other proteins; hypothetical protein 3216985..3217437 Shigella boydii Sb227 3782195 YP_409538.1 CDS nusA NC_007613.1 3217465 3218952 D transcription pausing; L factor; modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination; transcription elongation factor NusA 3217465..3218952 Shigella boydii Sb227 3782196 YP_409539.1 CDS infB NC_007613.1 3218977 3221625 D Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits during initiation of protein synthesis. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex; translation initiation factor IF-2 3218977..3221625 Shigella boydii Sb227 3782197 YP_409540.1 CDS rbfA NC_007613.1 3221789 3222190 D associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock; ribosome-binding factor A 3221789..3222190 Shigella boydii Sb227 3782198 YP_409541.1 CDS truB NC_007613.1 3222190 3223134 D catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs; tRNA pseudouridine synthase B 3222190..3223134 Shigella boydii Sb227 3782199 YP_409542.1 CDS rpsO NC_007613.1 3223283 3223552 D primary rRNA binding protein; helps nucleate assembly of 30S; binds directly to the 16S rRNA and an intersubunit bridge to the 23S rRNA; autoregulates translation through interactions with the mRNA leader sequence; 30S ribosomal protein S15 3223283..3223552 Shigella boydii Sb227 3782200 YP_409543.1 CDS pnp NC_007613.1 3223731 3225935 D cytidylate kinase activity; Code: J; COG: COG1185; polynucleotide phosphorylase/polyadenylase 3223731..3225935 Shigella boydii Sb227 3782201 YP_409544.1 CDS yhbM NC_007613.1 3226044 3226928 D lipoprotein that appears to be involved in cell division; interacts with the periplasmic protease Prc and may be activated by protease processing; lipoprotein NlpI 3226044..3226928 Shigella boydii Sb227 3782202 YP_409545.2 CDS deaD NC_007613.1 3227108 3228997 D participates in the assembly of the large subunit of the ribosome; plays a key role in optimal cell growth at low temperature and is required for normal cell division; ATP-dependent RNA helicase DeaD 3227108..3228997 Shigella boydii Sb227 3782203 YP_409546.1 CDS mtr NC_007613.1 3229151 3230395 D tryptophan transporter of high affinity; tryptophan permease 3229151..3230395 Shigella boydii Sb227 3782204 YP_409547.1 CDS yhbW NC_007613.1 3230513 3231520 R Code: C; COG: COG2141; hypothetical protein complement(3230513..3231520) Shigella boydii Sb227 3782205 YP_409548.1 CDS yhbV NC_007613.1 3231726 3232622 R Code: O; COG: COG0826; hypothetical protein complement(3231726..3232622) Shigella boydii Sb227 3782206 YP_409549.1 CDS yhbU NC_007613.1 3232613 3233593 R Code: O; COG: COG0826; collagenase complement(3232613..3233593) Shigella boydii Sb227 3782207 YP_409550.1 CDS yhbT NC_007613.1 3233802 3234326 D Code: I; COG: COG3154; hypothetical protein 3233802..3234326 Shigella boydii Sb227 3782208 YP_409551.1 CDS yhbS NC_007613.1 3234320 3234823 D Code: R; COG: COG3153; hypothetical protein 3234320..3234823 Shigella boydii Sb227 3782209 YP_409552.1 CDS yhbQ NC_007613.1 3234810 3235112 R Code: L; COG: COG2827; GIY-YIG nuclease superfamily protein complement(3234810..3235112) Shigella boydii Sb227 3782210 YP_409553.1 CDS yhbP NC_007613.1 3235163 3235606 D Code: S; COG: COG3787; hypothetical protein 3235163..3235606 Shigella boydii Sb227 3782211 YP_409554.1 CDS yhbO NC_007613.1 3235586 3236146 R Code: R; COG: COG0693; hypothetical protein complement(3235586..3236146) Shigella boydii Sb227 3782212 YP_409555.1 CDS yraR NC_007613.1 3236187 3236867 D Code: MG; COG: COG0702; hypothetical protein 3236187..3236867 Shigella boydii Sb227 3782213 YP_409556.1 CDS yraQ NC_007613.1 3236940 3237980 D Code: R; COG: COG0701; hypothetical protein 3236940..3237980 Shigella boydii Sb227 3782214 YP_409557.1 CDS yraP NC_007613.1 3238094 3238669 R Code: R; COG: COG2823; hypothetical protein complement(3238094..3238669) Shigella boydii Sb227 3782215 YP_409558.1 CDS yraO NC_007613.1 3238679 3239269 R Required for the timely initiation of chromosomal replication via direct interactions with the dnaA initiator protein; DnaA initiator-associating protein DiaA complement(3238679..3239269) Shigella boydii Sb227 3782216 YP_409559.1 CDS yraN NC_007613.1 3239289 3239684 R Code: L; COG: COG0792; hypothetical protein complement(3239289..3239684) Shigella boydii Sb227 3782217 YP_409560.1 CDS yraM NC_007613.1 3239642 3241669 R Code: R; COG: COG3107; glycosylase complement(3239642..3241669) Shigella boydii Sb227 3782218 YP_409561.1 CDS yraL NC_007613.1 3241733 3242593 D Code: R; COG: COG0313; hypothetical protein 3241733..3242593 Shigella boydii Sb227 3782219 YP_409562.1 CDS SBO_3237 NC_007613.1 3243534 3243809 D Code: L; COG: COG2963; IS629 ORF1 3243534..3243809 Shigella boydii Sb227 3782220 YP_409563.1 CDS SBO_3238 NC_007613.1 3243809 3244696 D Code: L; COG: COG2801; IS629 ORF2 3243809..3244696 Shigella boydii Sb227 3782221 YP_409564.1 CDS yraJ NC_007613.1 3245051 3247384 R Code: NU; COG: COG3188; outer membrane protein complement(3245051..3247384) Shigella boydii Sb227 3782223 YP_409565.1 CDS SBO_3241 NC_007613.1 3247843 3248193 D Code: L; COG: COG3436; protein encoded within IS 3247843..3248193 Shigella boydii Sb227 3782224 YP_409566.1 CDS SBO_3242 NC_007613.1 3248413 3248751 D protein encoded within IS 3248413..3248751 Shigella boydii Sb227 3782225 YP_409567.1 CDS SBO_3243 NC_007613.1 3248821 3249816 D Code: L; COG: COG3436; protein encoded within IS 3248821..3249816 Shigella boydii Sb227 3782226 YP_409568.1 CDS insB NC_007613.1 3250208 3250603 R Code: L; COG: COG1662; IS1 ORF2 complement(3250208..3250603) Shigella boydii Sb227 3782227 YP_409569.2 CDS SBO_3245 NC_007613.1 3251026 3251931 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 3251026..3251931 Shigella boydii Sb227 3782228 YP_409570.1 CDS SBO_3246 NC_007613.1 3252122 3252301 D IS1 encoded protein 3252122..3252301 Shigella boydii Sb227 3782229 YP_409571.1 CDS SBO_3247 NC_007613.1 3252270 3252485 R hypothetical protein complement(3252270..3252485) Shigella boydii Sb227 3782230 YP_409572.1 CDS gatY NC_007613.1 3252521 3253375 R catalyzes the reversible reaction of dihydroxyacetone phosphate with glyceraldehyde 3-phosphate to produce tagatose 1,6-bisphosphate; in enteric bacteria there are two D-tagatose 1,6-bisphosphate-specific aldolases: KbaY (also called AgaY), involved in catabolism of N-acetyl-galactosamine and D-galactosamine, and GatY which is part of the galactitol catabolism pathway; tagatose-bisphosphate aldolase complement(3252521..3253375) Shigella boydii Sb227 3782231 YP_409573.1 CDS agaR NC_007613.1 3253718 3254548 D Code: KG; COG: COG1349; DEOR-type transcriptional regulator of aga operon 3253718..3254548 Shigella boydii Sb227 3782232 YP_409574.1 CDS SBO_3250 NC_007613.1 3254580 3255515 D Code: G; COG: COG0524; carbohydrate kinase 3254580..3255515 Shigella boydii Sb227 3782233 YP_409575.1 CDS yhdT NC_007613.1 3255608 3255850 D Code: S; COG: COG3924; hypothetical protein 3255608..3255850 Shigella boydii Sb227 3782234 YP_409576.2 CDS panF NC_007613.1 3255840 3257291 D mediates high affinitiy panthothenate transport which is stimulated by the presence of sodium ions; member of SSS family of sodium/solute symporters; the imported panthothenate is phosphorylated by panthothenate kinase; sodium/panthothenate symporter 3255840..3257291 Shigella boydii Sb227 3782235 YP_409577.1 CDS prmA NC_007613.1 3257303 3258184 D methylates ribosomal protein L11 at multiple amino acid positions; mutations of these genes in Escherichia coli or Thermus thermophilus has no apparent phenotype; 50S ribosomal protein L11 methyltransferase 3257303..3258184 Shigella boydii Sb227 3782236 YP_409578.1 CDS yhdG NC_007613.1 3258513 3259478 D Code: J; COG: COG0042; tRNA-dihydrouridine synthase B 3258513..3259478 Shigella boydii Sb227 3782237 YP_409579.1 CDS fis NC_007613.1 3259504 3259800 D DNA-binding protein; a trans activator for transcription; Stimulates excision of phage lambda; affects Mu development; acts as an activator of rRNA and iRNA transcription; DNA-binding protein Fis 3259504..3259800 Shigella boydii Sb227 3782238 YP_409580.2 CDS yhdJ NC_007613.1 3259886 3260770 D Code: L; COG: COG0863; methyltransferase 3259886..3260770 Shigella boydii Sb227 3782239 YP_409581.1 CDS yhdU NC_007613.1 3260854 3261033 D hypothetical protein 3260854..3261033 Shigella boydii Sb227 3782240 YP_409582.1 CDS envR NC_007613.1 3261036 3261698 R Code: K; COG: COG1309; DNA-binding transcriptional regulator EnvR complement(3261036..3261698) Shigella boydii Sb227 3782241 YP_409583.1 CDS acrE NC_007613.1 3262097 3263215 D transmembrane protein affects septum formation and cell membrane permeability; Code: M; COG: COG0845; AcrE protein 3262097..3263215 Shigella boydii Sb227 3782242 YP_409584.1 CDS acrF NC_007613.1 3263267 3266371 D acridine resistance; Code: V; COG: COG0841; integral transmembrane protein 3263267..3266371 Shigella boydii Sb227 3782243 YP_409585.1 CDS yhdV NC_007613.1 3266624 3266845 D hypothetical protein 3266624..3266845 Shigella boydii Sb227 3782244 YP_409586.1 CDS yhdW NC_007613.1 3267384 3268349 D Code: ET; COG: COG0834; periplasmic binding transport protein 3267384..3268349 Shigella boydii Sb227 3782245 YP_409587.1 CDS yhdY NC_007613.1 3269594 3270700 D Code: E; COG: COG0765; transport system permease 3269594..3270700 Shigella boydii Sb227 3782247 YP_409588.1 CDS yhdZ NC_007613.1 3270708 3271466 D Code: E; COG: COG1126; ABC transporter ATP-binding protein 3270708..3271466 Shigella boydii Sb227 3782248 YP_409589.1 CDS yrdA NC_007613.1 3277374 3278072 D Code: R; COG: COG0663; transferase 3277374..3278072 Shigella boydii Sb227 3782256 YP_409590.1 CDS yrdB NC_007613.1 3278048 3278305 R hypothetical protein complement(3278048..3278305) Shigella boydii Sb227 3782257 YP_409591.1 CDS aroE NC_007613.1 3278302 3279120 R AroE; catalyzes the conversion of shikimate to 3-dehydroshikimate; shikimate 5-dehydrogenase complement(3278302..3279120) Shigella boydii Sb227 3782258 YP_409592.1 CDS yrdC NC_007613.1 3279125 3279697 R RimN; YrdC; required for maturation of 16s RNA; binds preferentially double stranded RNA; ribosome maturation factor complement(3279125..3279697) Shigella boydii Sb227 3782259 YP_409593.1 CDS yrdD NC_007613.1 3279702 3280220 R Code: L; COG: COG0551; DNA topoisomerase complement(3279702..3280220) Shigella boydii Sb227 3782260 YP_409594.1 CDS smg NC_007613.1 3280273 3280746 R Code: S; COG: COG2922; hypothetical protein complement(3280273..3280746) Shigella boydii Sb227 3782261 YP_409595.1 CDS smf NC_007613.1 3280718 3281842 R Code: LU; COG: COG0758; DNA protecting protein DprA complement(3280718..3281842) Shigella boydii Sb227 3782262 YP_409596.1 CDS def NC_007613.1 3281972 3282481 D cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+); peptide deformylase 3281972..3282481 Shigella boydii Sb227 3782263 YP_409597.1 CDS fmt NC_007613.1 3282496 3283443 D modifies the free amino group of the aminoacyl moiety of methionyl-tRNA(fMet) which is important in translation initiation; inactivation of this gene in Escherichia coli severely impairs growth; methionyl-tRNA formyltransferase 3282496..3283443 Shigella boydii Sb227 3782264 YP_409598.1 CDS sun NC_007613.1 3283489 3284778 D catalyzes the methylation of cytosine at position 967 (m5C967) of 16S rRNA; SAM-dependent methyltransferase; 16S rRNA methyltransferase B 3283489..3284778 Shigella boydii Sb227 3782265 YP_409599.1 CDS trkA NC_007613.1 3284800 3286176 D involved in potassium uptake; found to be peripherally associated with the inner membrane in Escherichia coli; contains an NAD-binding domain; potassium transporter peripheral membrane protein 3284800..3286176 Shigella boydii Sb227 3782266 YP_409600.1 CDS mscL NC_007613.1 3286306 3286716 D forms homopentamer; channel that opens in response to pressure or hypoosmotic shock; large-conductance mechanosensitive channel 3286306..3286716 Shigella boydii Sb227 3782267 YP_409601.1 CDS yhdL NC_007613.1 3286713 3286931 R Code: S; COG: COG3036; hypothetical protein complement(3286713..3286931) Shigella boydii Sb227 3782268 YP_409602.1 CDS zntR NC_007613.1 3286987 3287412 R mediates expression of the zinc export protein ZntA in response to high levels of zinc; member of MerR family of transcriptional regulators; zinc-responsive transcriptional regulator complement(3286987..3287412) Shigella boydii Sb227 3782269 YP_409603.1 CDS yhdN NC_007613.1 3287423 3287791 R hypothetical protein complement(3287423..3287791) Shigella boydii Sb227 3782270 YP_409604.1 CDS rplQ NC_007613.1 3287898 3288281 R is a component of the macrolide binding site in the peptidyl transferase center; 50S ribosomal protein L17 complement(3287898..3288281) Shigella boydii Sb227 3782271 YP_409605.1 CDS rpoA NC_007613.1 3288322 3289311 R catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Dimerization of the alpha subunit is the first step in the sequential assembly of subunits to form the holoenzyme; DNA-directed RNA polymerase subunit alpha complement(3288322..3289311) Shigella boydii Sb227 3782272 YP_409606.1 CDS rpsD NC_007613.1 3289337 3289957 R primary rRNA binding protein; nucleates 30S assembly; involved in translational accuracy with proteins S5 and S12; interacts with protein S5; involved in autogeneously regulating ribosomal proteins by binding to pseudoknot structures in the polycistronic mRNA; interacts with transcription complex and functions similar to protein NusA in antitermination; 30S ribosomal protein S4 complement(3289337..3289957) Shigella boydii Sb227 3782273 YP_409607.1 CDS rpsK NC_007613.1 3289991 3290380 R located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA; forms part of the Shine-Dalgarno cleft in the 70S ribosome; interacts with S7 and S18 and IF-3; 30S ribosomal protein S11 complement(3289991..3290380) Shigella boydii Sb227 3782274 YP_409608.1 CDS rpsM NC_007613.1 3290397 3290753 R located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA; makes contact with the large subunit via RNA-protein interactions and via protein-protein interactions with L5; contacts P-site tRNA; 30S ribosomal protein S13 complement(3290397..3290753) Shigella boydii Sb227 3782275 YP_409609.1 CDS rpmJ NC_007613.1 3290900 3291016 R smallest protein in the large subunit; similar to what is found with protein L31 and L33 several bacterial genomes contain paralogs which may be regulated by zinc; the protein from Thermus thermophilus has a zinc-binding motif and contains a bound zinc ion; the proteins in this group have the motif; 50S ribosomal protein L36 complement(3290900..3291016) Shigella boydii Sb227 3782276 YP_409610.1 CDS secY NC_007613.1 3291048 3292379 R forms heterotrimeric complex in the membrane; in bacteria the complex consists of SecY which forms the channel pore and SecE and SecG; the SecG subunit is not essential; in bacteria translocation is driven via the SecA ATPase; preprotein translocase subunit SecY complement(3291048..3292379) Shigella boydii Sb227 3782277 YP_409611.1 CDS rplO NC_007613.1 3292387 3292821 R late assembly protein; 50S ribosomal protein L15 complement(3292387..3292821) Shigella boydii Sb227 3782278 YP_409612.1 CDS rpmD NC_007613.1 3292825 3293004 R L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7; 50S ribosomal protein L30 complement(3292825..3293004) Shigella boydii Sb227 3782279 YP_409613.1 CDS rpsE NC_007613.1 3293008 3293511 R located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body; contacts S4 and S8; with S4 and S12 plays a role in translational accuracy; mutations in this gene result in spectinomycin resistance; 30S ribosomal protein S5 complement(3293008..3293511) Shigella boydii Sb227 3782280 YP_409614.1 CDS rplR NC_007613.1 3293526 3293879 R binds 5S rRNA along with protein L5 and L25; 50S ribosomal protein L18 complement(3293526..3293879) Shigella boydii Sb227 3782281 YP_409615.1 CDS rplF NC_007613.1 3293889 3294422 R ribosomal protein L6 appears to have arisen as a result of an ancient gene duplication as based on structural comparison of the Bacillus stearothermophilus protein; RNA-binding appears to be in the C-terminal domain; mutations in the L6 gene confer resistance to aminoglycoside antibiotics such as gentamicin and these occur in truncations of the C-terminal domain; it has been localized to a region between the base of the L7/L12 stalk and the central protuberance; 50S ribosomal protein L6 complement(3293889..3294422) Shigella boydii Sb227 3782282 YP_409616.1 CDS rpsH NC_007613.1 3294435 3294827 R also regulator; binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit; 30S ribosomal protein S8 complement(3294435..3294827) Shigella boydii Sb227 3782283 YP_409617.1 CDS rpsN NC_007613.1 3294861 3295166 R located in the peptidyl transferase center and involved in assembly of 30S ribosome subunit; similar to what is observed with proteins L31 and L33, some proteins in this family contain CXXC motifs that are involved in zinc binding; if two copies are present in a genome, then the duplicated copy appears to have lost the zinc-binding motif and is instead regulated by zinc; the proteins in this group do not appear to have the zinc-binding motif; 30S ribosomal protein S14 complement(3294861..3295166) Shigella boydii Sb227 3782284 YP_409618.1 CDS rplE NC_007613.1 3295181 3295720 R part of 50S and 5S/L5/L18/L25 subcomplex; contacts 5S rRNA and P site tRNA; forms a bridge to the 30S subunit in the ribosome by binding to S13; 50S ribosomal protein L5 complement(3295181..3295720) Shigella boydii Sb227 3782285 YP_409619.1 CDS rplX NC_007613.1 3295735 3296049 R assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel; 50S ribosomal protein L24 complement(3295735..3296049) Shigella boydii Sb227 3782286 YP_409620.1 CDS rplN NC_007613.1 3296060 3296431 R binds to the 23S rRNA between the centers for peptidyl transferase and GTPase; 50S ribosomal protein L14 complement(3296060..3296431) Shigella boydii Sb227 3782287 YP_409621.1 CDS rpsQ NC_007613.1 3296596 3296850 R primary binding protein; helps mediate assembly; involved in translation fidelity; 30S ribosomal protein S17 complement(3296596..3296850) Shigella boydii Sb227 3782288 YP_409622.1 CDS rpmC NC_007613.1 3296850 3297041 R one of the stabilizing components for the large ribosomal subunit; 50S ribosomal protein L29 complement(3296850..3297041) Shigella boydii Sb227 3782289 YP_409623.1 CDS rplP NC_007613.1 3297041 3297451 R located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e; 50S ribosomal protein L16 complement(3297041..3297451) Shigella boydii Sb227 3782290 YP_409624.1 CDS rpsC NC_007613.1 3297464 3298165 R forms a complex with S10 and S14; binds the lower part of the 30S subunit head and the mRNA in the complete ribosome to position it for translation; 30S ribosomal protein S3 complement(3297464..3298165) Shigella boydii Sb227 3782291 YP_409625.1 CDS rplV NC_007613.1 3298183 3298515 R binds specifically to 23S rRNA during the early stages of 50S assembly; makes contact with all 6 domains of the 23S rRNA in the assembled 50S subunit and ribosome; mutations in this gene result in erythromycin resistance; located near peptidyl-transferase center; 50S ribosomal protein L22 complement(3298183..3298515) Shigella boydii Sb227 3782292 YP_409626.1 CDS rpsS NC_007613.1 3298530 3298808 R protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA; 30S ribosomal protein S19 complement(3298530..3298808) Shigella boydii Sb227 3782293 YP_409627.1 CDS rplB NC_007613.1 3298825 3299646 R one of the primary rRNA-binding proteins; required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation; 50S ribosomal protein L2 complement(3298825..3299646) Shigella boydii Sb227 3782294 YP_409628.1 CDS rplW NC_007613.1 3299664 3299966 R binds third domain of 23S rRNA and protein L29; part of exit tunnel; 50S ribosomal protein L23 complement(3299664..3299966) Shigella boydii Sb227 3782295 YP_409629.1 CDS rplD NC_007613.1 3299963 3300568 R regulates expression of S10 operon; L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA; 50S ribosomal protein L4 complement(3299963..3300568) Shigella boydii Sb227 3782296 YP_409630.1 CDS rplC NC_007613.1 3300579 3301208 R binds directly near the 3' end of the 23S rRNA, where it nucleates assembly of the 50S subunit; essential for peptidyltransferase activity; mutations in this gene confer resistance to tiamulin; 50S ribosomal protein L3 complement(3300579..3301208) Shigella boydii Sb227 3782297 YP_409631.1 CDS rpsJ NC_007613.1 3301241 3301552 R NusE; involved in assembly of the 30S subunit; in the ribosome, this protein is involved in the binding of tRNA; in Escherichia coli this protein was also found to be involved in transcription antitermination; NusB/S10 heterodimers bind boxA sequences in the leader RNA of rrn operons which is required for antitermination; binding of NusB/S10 to boxA nucleates assembly of the antitermination complex; 30S ribosomal protein S10 complement(3301241..3301552) Shigella boydii Sb227 3782298 YP_409632.2 CDS SBO_3316 NC_007613.1 3302509 3303414 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(3302509..3303414) Shigella boydii Sb227 3782299 YP_409633.1 CDS SBO_3317 NC_007613.1 3303372 3303737 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(3303372..3303737) Shigella boydii Sb227 3782300 YP_409634.1 CDS SBO_3318 NC_007613.1 3303801 3305087 D Code: L; COG: COG3385; IS4 orf 3303801..3305087 Shigella boydii Sb227 3782301 YP_409635.1 CDS bfr NC_007613.1 3305169 3305645 R an iron storage homoprotein; iron storage protein; bacterioferritin complement(3305169..3305645) Shigella boydii Sb227 3782302 YP_409636.1 CDS tufA NC_007613.1 3306095 3307279 R duplicate of tufB; EF-Tu; promotes GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis; when the tRNA anticodon matches the mRNA codon, GTP hydrolysis results; the inactive EF-Tu-GDP leaves the ribosome and release of GDP is promoted by elongation factor Ts; many prokaryotes have two copies of the gene encoding EF-Tu; elongation factor Tu complement(3306095..3307279) Shigella boydii Sb227 3782303 YP_409637.1 CDS fusA NC_007613.1 3307350 3309464 R EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene; elongation factor G complement(3307350..3309464) Shigella boydii Sb227 3782304 YP_409638.1 CDS rpsG NC_007613.1 3309561 3310031 R initiates assembly; binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit; 30S ribosomal protein S7 complement(3309561..3310031) Shigella boydii Sb227 3782305 YP_409639.1 CDS rpsL NC_007613.1 3310128 3310502 R interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone; located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side; mutations in the S12 gene confer streptomycin resistance; 30S ribosomal protein S12 complement(3310128..3310502) Shigella boydii Sb227 3782306 YP_409640.1 CDS yheM NC_007613.1 3310923 3311282 R in Escherichai coli the heterohexameric TusBCD complex is involved in sulfur related that results in thiouridation to U34 position in some tRNAs; sulfur relay protein TusC complement(3310923..3311282) Shigella boydii Sb227 3782307 YP_409641.1 CDS yheN NC_007613.1 3311282 3311668 R in Escherichai coli the heterohexameric TusBCD complex is involved in sulfur related that results in thiouridation to U34 position in some tRNAs; sulfur transfer complex subunit TusD complement(3311282..3311668) Shigella boydii Sb227 3782308 YP_409642.1 CDS yheO NC_007613.1 3311668 3312402 R Code: S; COG: COG2964; hypothetical protein complement(3311668..3312402) Shigella boydii Sb227 3782309 YP_409643.1 CDS fkpA NC_007613.1 3312557 3313369 R rotamase; FKBP-type peptidyl-prolyl cis-trans isomerase complement(3312557..3313369) Shigella boydii Sb227 3782310 YP_409644.1 CDS slyX NC_007613.1 3313590 3313808 D Code: S; COG: COG2900; hypothetical protein 3313590..3313808 Shigella boydii Sb227 3782311 YP_409645.1 CDS slyD NC_007613.1 3313857 3314447 R rotamase; FKBP-type peptidyl-prolyl cis-trans isomerase complement(3313857..3314447) Shigella boydii Sb227 3782312 YP_409646.1 CDS kefB NC_007613.1 3314752 3316563 R K+ efflux; involved in potassium efflux; glutathione-regulated potassium-efflux system protein KefB complement(3314752..3316563) Shigella boydii Sb227 3782313 YP_409647.1 CDS yheR NC_007613.1 3316563 3317117 R required for KefB activity; glutathione-regulated potassium-efflux system ancillary protein KefG complement(3316563..3317117) Shigella boydii Sb227 3782314 YP_409648.1 CDS yheS NC_007613.1 3317245 3319158 D Code: R; COG: COG0488; ABC transporter ATP-binding protein 3317245..3319158 Shigella boydii Sb227 3782315 YP_409649.1 CDS yheT NC_007613.1 3319158 3320180 D Code: R; COG: COG0429; hydrolase 3319158..3320180 Shigella boydii Sb227 3782316 YP_409650.1 CDS yheU NC_007613.1 3320174 3320392 D Code: S; COG: COG3089; hypothetical protein 3320174..3320392 Shigella boydii Sb227 3782317 YP_409651.1 CDS prkB NC_007613.1 3320446 3321315 D Code: C; COG: COG3954; phosphoribulokinase 3320446..3321315 Shigella boydii Sb227 3782318 YP_409652.1 CDS yhfA NC_007613.1 3321370 3321621 R Code: O; COG: COG1765; hypothetical protein complement(3321370..3321621) Shigella boydii Sb227 3782319 YP_409653.1 CDS SBO_3337 NC_007613.1 3321867 3323063 D Code: L; COG: COG3547; ISSfl2 ORF 3321867..3323063 Shigella boydii Sb227 3782320 YP_409654.2 CDS SBO_3338 NC_007613.1 3323680 3324585 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 3323680..3324585 Shigella boydii Sb227 3782321 YP_409655.1 CDS crp NC_007613.1 3324863 3325495 D complexes with cyclic AMP and binds to specific DNA sites near the promoter to regulate the transcription of several catabolite-sensitive operons; cAMP-regulatory protein 3324863..3325495 Shigella boydii Sb227 3782322 YP_409656.1 CDS yhfK NC_007613.1 3326324 3327637 D Code: S; COG: COG1289; hypothetical protein 3326324..3327637 Shigella boydii Sb227 3782323 YP_409657.1 CDS argD NC_007613.1 3327704 3328924 R DapATase; bifunctional enzyme that functions in arginine and lysine biosynthetic pathways; catalyzes the formation of N-acetyl-L-glutamate 5-semialdehyde from 2-oxoglutarate and N(2)-acetyl-L-ornithine or N-succinyl-2-L-amino-6-oxoheptanedioate from 2-oxoglutarate and N-succinyl-L-2,6-diaminoheptanedioate; bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase complement(3327704..3328924) Shigella boydii Sb227 3782324 YP_409658.1 CDS pabA NC_007613.1 3329010 3329573 R aminodeoxychorismate synthase subunit PabA; with PabB catalyzes the formation of 4-amino-4-deoxychorismate from chorismate and glutamine in para-aminobenzoate synthesis; PabA provides the glutamine amidotransferase activity; para-aminobenzoate synthase component II complement(3329010..3329573) Shigella boydii Sb227 3782325 YP_409659.1 CDS fic NC_007613.1 3329605 3330207 R induced in stationary phase, recognized by rpoS, affects cell division; Code: D; COG: COG2184; cell filamentation protein Fic complement(3329605..3330207) Shigella boydii Sb227 3782326 YP_409660.1 CDS yhfG NC_007613.1 3330197 3330364 R hypothetical protein complement(3330197..3330364) Shigella boydii Sb227 3782327 YP_409661.1 CDS ppiA NC_007613.1 3330469 3331041 R rotamase A; Code: O; COG: COG0652; peptidyl-prolyl cis-trans isomerase A complement(3330469..3331041) Shigella boydii Sb227 3782328 YP_409662.1 CDS yhfC NC_007613.1 3331312 3332493 D Code: GEPR; COG: COG0477; hypothetical protein 3331312..3332493 Shigella boydii Sb227 3782329 YP_409663.1 CDS nirB NC_007613.1 3332755 3335298 D Code: C; COG: COG1251; nitrite reductase (NAD(P)H) subunit 3332755..3335298 Shigella boydii Sb227 3782330 YP_409664.1 CDS nirD NC_007613.1 3335295 3335621 D involved in reducing nitrite to ammonium to detoxify nitrite accumulation in anaerobic nitrate-respiring cells and regenerate NAD+; bounds to NirB, the cytoplasmic subunit, whose expression is induced at high nitrate concentrations; nitrite reductase small subunit 3335295..3335621 Shigella boydii Sb227 3782331 YP_409665.1 CDS nirC NC_007613.1 3335748 3336554 D member of the FNT family of formate and nitrite transporters; nitrite transporter NirC 3335748..3336554 Shigella boydii Sb227 3782332 YP_409666.1 CDS cysG NC_007613.1 3336573 3337946 D sirohaeme biosynthesis; multifunction enzyme consisting of uroporphyrin-III C-methyltransferase, precorrin-2 dehydrogenase and sirohydrochlorin ferrochelatase; catalyzes the methylation of uroporphyrinogen III to form precorrin-2, then catalyzes formation of sirohydrochlorin from precorrin-2 and finally catalyzed the formation of siroheme from sirohydrochlorin; siroheme synthase 3336573..3337946 Shigella boydii Sb227 3782333 YP_409667.1 CDS SBO_3351 NC_007613.1 3338166 3338348 R IS1 encoded protein complement(3338166..3338348) Shigella boydii Sb227 3782334 YP_409668.1 CDS insB NC_007613.1 3338441 3338881 D Code: L; COG: COG1662; IS1 ORF2 3338441..3338881 Shigella boydii Sb227 3782335 YP_409669.1 CDS SBO_3353 NC_007613.1 3339378 3339728 D Code: L; COG: COG3436; protein encoded within IS 3339378..3339728 Shigella boydii Sb227 3782336 YP_409670.1 CDS SBO_3354 NC_007613.1 3339948 3340286 D protein encoded within IS 3339948..3340286 Shigella boydii Sb227 3782337 YP_409671.1 CDS SBO_3355 NC_007613.1 3340356 3340772 D protein encoded within IS 3340356..3340772 Shigella boydii Sb227 3782338 YP_409672.1 CDS SBO_3356 NC_007613.1 3340785 3341351 D protein encoded within IS 3340785..3341351 Shigella boydii Sb227 3782339 YP_409673.1 CDS yhfL NC_007613.1 3341493 3341660 D hypothetical protein 3341493..3341660 Shigella boydii Sb227 3782340 YP_409674.1 CDS frlA NC_007613.1 3341905 3343293 D inner membrane protein possibly involved in fructoselysine transport; member of the flr operon; fructoselysine transporter 3341905..3343293 Shigella boydii Sb227 3782341 YP_409675.1 CDS frlB NC_007613.1 3343293 3344336 D catalyzes the conversion of fructoselysine 6-phosphate to glucose 6-phosphate and lysine; fructoselysine-6-P-deglycase 3343293..3344336 Shigella boydii Sb227 3782342 YP_409676.1 CDS yhfP NC_007613.1 3344386 3345216 D YhfOP; YhfP; YhfO; FrlC; catalyzes the interconversion of fructoselysine and psicoselysine; fructoselysine 3-epimerase 3344386..3345216 Shigella boydii Sb227 3782343 YP_409677.1 CDS yhfQ NC_007613.1 3345213 3345998 D Code: G; COG: COG0524; fructoselysine 6-kinase 3345213..3345998 Shigella boydii Sb227 3782344 YP_409678.1 CDS yhfR NC_007613.1 3346032 3346829 D may act as a transcriptional regulator of a fructoselysine-induced operon containing the yhfM, yhfN, yhfO, yhfP, yhfQ, and yhfR genes; DNA-binding transcriptional regulator FrlR 3346032..3346829 Shigella boydii Sb227 3782345 YP_409679.1 CDS yhfS NC_007613.1 3346981 3348066 R hypothetical protein complement(3346981..3348066) Shigella boydii Sb227 3782346 YP_409680.1 CDS yhfU NC_007613.1 3349394 3349786 R hypothetical protein complement(3349394..3349786) Shigella boydii Sb227 3782348 YP_409681.1 CDS yhfV NC_007613.1 3349758 3350636 R phosphotriesterase homology protein; PhP; YhfV; member of a family of proteins related to phosphotriesterase (PTE); hydrolase complement(3349758..3350636) Shigella boydii Sb227 3782349 YP_409682.1 CDS yhfW NC_007613.1 3350633 3351859 R Code: G; COG: COG1015; mutase complement(3350633..3351859) Shigella boydii Sb227 3782350 YP_409683.1 CDS yhfX NC_007613.1 3351859 3353022 R Code: E; COG: COG3457; hypothetical protein complement(3351859..3353022) Shigella boydii Sb227 3782351 YP_409684.1 CDS yhfY NC_007613.1 3353106 3353510 R hypothetical protein complement(3353106..3353510) Shigella boydii Sb227 3782352 YP_409685.1 CDS yhfZ NC_007613.1 3353485 3354171 R hypothetical protein complement(3353485..3354171) Shigella boydii Sb227 3782353 YP_409686.1 CDS trpS NC_007613.1 3354659 3355663 R catalyzes a two-step reaction, first charging a tryptophan molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; tryptophanyl-tRNA synthetase complement(3354659..3355663) Shigella boydii Sb227 3782354 YP_409687.1 CDS gph NC_007613.1 3355656 3356414 R catalyzes the dephosphorylation of 2-phosphoglycolate to form glycolate and phosphate; phosphoglycolate phosphatase complement(3355656..3356414) Shigella boydii Sb227 3782355 YP_409688.1 CDS rpe NC_007613.1 3356407 3357084 R catalyzes the interconversion of D-ribulose 5-phosphate to xylulose 5-phosphate; ribulose-phosphate 3-epimerase complement(3356407..3357084) Shigella boydii Sb227 3782356 YP_409689.1 CDS dam NC_007613.1 3357102 3357938 R Code: L; COG: COG0338; DNA adenine methylase complement(3357102..3357938) Shigella boydii Sb227 3782357 YP_409690.1 CDS damX NC_007613.1 3358045 3359331 R membrane protein; interferes with cell division; Code: S; COG: COG3266; hypothetical protein complement(3358045..3359331) Shigella boydii Sb227 3782358 YP_409691.1 CDS aroB NC_007613.1 3359423 3360511 R catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis; 3-dehydroquinate synthase complement(3359423..3360511) Shigella boydii Sb227 3782359 YP_409692.1 CDS aroK NC_007613.1 3360568 3361089 R type I enzyme similar to type II but differentially regulated; major shikimate kinase in fully repressed cells; catalyzes the formation of shikimate 3-phosphate from shikimate in aromatic amino acid biosynthesis; shikimate kinase I complement(3360568..3361089) Shigella boydii Sb227 3782360 YP_409693.1 CDS hofQ NC_007613.1 3361490 3362728 R outer membrane porin probably involved in uptake of extracellular double-stranded DNA; similar to outer membrane competence protein ComE from Haemophilus influenzae and outer membrane protein PilQ involved in type IV pilus production from Pseudomonas aeruginosa; outer membrane porin HofQ complement(3361490..3362728) Shigella boydii Sb227 3782361 YP_409694.1 CDS yrfA NC_007613.1 3362640 3363083 R hypothetical protein complement(3362640..3363083) Shigella boydii Sb227 3782362 YP_409695.1 CDS yrfB NC_007613.1 3363034 3363474 R hypothetical protein complement(3363034..3363474) Shigella boydii Sb227 3782363 YP_409696.1 CDS yrfC NC_007613.1 3363458 3363997 R Code: NU; COG: COG3166; hypothetical protein complement(3363458..3363997) Shigella boydii Sb227 3782364 YP_409697.1 CDS yrfD NC_007613.1 3363997 3364803 R hypothetical protein complement(3363997..3364803) Shigella boydii Sb227 3782365 YP_409698.2 CDS mrcA NC_007613.1 3364896 3367448 D penicillin-binding protein 1A; bifunctional murein transglycosylase/murein transpeptidase; penicillin-binding protein 1A; involved in the synthesis of cross-linked peptidoglycan from the lipid intermediates in cell wall formation; penicillin-insensitive transglycosylase catalyzes the formation of linear glycan strands and the penicillin-sensitive transpeptidase catalyzes the cross-linking of the peptide subunits; peptidoglycan synthetase 3364896..3367448 Shigella boydii Sb227 3782366 YP_409699.1 CDS nudE NC_007613.1 3367613 3368173 R ADP-sugar pyrophosphatase; catalyzes the formation of D-ribose 5-phosphate from ADP-ribose; can also act on ADP-mannose and ADP-glucose; ADP-ribose diphosphatase NudE complement(3367613..3368173) Shigella boydii Sb227 3782367 YP_409700.1 CDS yrfF NC_007613.1 3368493 3370628 D dehydrogenase 3368493..3370628 Shigella boydii Sb227 3782368 YP_409701.1 CDS yrfG NC_007613.1 3370648 3371361 D Code: R; COG: COG1011; phosphatase 3370648..3371361 Shigella boydii Sb227 3782369 YP_409702.1 CDS yrfH NC_007613.1 3371372 3371773 D Code: J; COG: COG1188; ribosome-associated heat shock protein Hsp15 3371372..3371773 Shigella boydii Sb227 3782370 YP_409703.2 CDS hslO NC_007613.1 3371798 3372676 D becomes active under oxidative stress; four conserved cysteines bind a zinc atom when they are in the reduced state and the enzyme is inactive; oxidative stress results in oxidized cysteines, release of zinc, and binding of Hsp33 to aggregation-prone proteins; forms dimers and higher order oligomers; Hsp33-like chaperonin 3371798..3372676 Shigella boydii Sb227 3782371 YP_409704.1 CDS yhgE NC_007613.1 3372811 3374535 R transport complement(3372811..3374535) Shigella boydii Sb227 3782372 YP_409705.1 CDS pckA NC_007613.1 3374914 3376536 D PEP carboxykinase; PEP carboxylase; PEPCK; catalyzes the phosphorylation and decarboxylation of oxaloacetate to form phosphoenolpyruvate using ATP; phosphoenolpyruvate carboxykinase 3374914..3376536 Shigella boydii Sb227 3782373 YP_409706.1 CDS envZ NC_007613.1 3376612 3377964 R protein histidine kinase/phosphatase sensor for OmpR, modulates expression of ompF and ompC; membrane-localized osmosensor; histidine kinase; in high osmolarity EnvZ autophosphorylates itself and transfers phosphoryl group to OmpR; osmolarity sensor protein complement(3376612..3377964) Shigella boydii Sb227 3782374 YP_409707.1 CDS ompR NC_007613.1 3377961 3378680 R response regulator (sensor, EnvZ) affecting transcription of ompC and ompF: outer membrane protein synthesis; part of two-component system EnvZ/OmpR; regulates transcription of outer membrane porin genes ompC/F; under high osmolarity EnvZ functions as kinase/phosphotransferase and phosphorylates OmpR; the result is increased expression of ompC and repression of ompF; also functions in regulation of other genes; forms dimers upon phosphorylation; osmolarity response regulator complement(3377961..3378680) Shigella boydii Sb227 3782375 YP_409708.1 CDS greB NC_007613.1 3378908 3379384 D necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites; arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus; transcription elongation factor GreB 3378908..3379384 Shigella boydii Sb227 3782376 YP_409709.1 CDS yhgF NC_007613.1 3379580 3381802 D Code: K; COG: COG2183; hypothetical protein 3379580..3381802 Shigella boydii Sb227 3782377 YP_409710.1 CDS SBO_3395 NC_007613.1 3381907 3382077 R IS1 encoded protein complement(3381907..3382077) Shigella boydii Sb227 3782378 YP_409711.1 CDS insB NC_007613.1 3382170 3382673 D Code: L; COG: COG1662; IS1 ORF2 3382170..3382673 Shigella boydii Sb227 3782379 YP_409712.1 CDS feoA NC_007613.1 3383016 3383243 D Code: P; COG: COG1918; ferrous iron transport protein A 3383016..3383243 Shigella boydii Sb227 3782380 YP_409713.1 CDS feoB NC_007613.1 3383260 3385581 D cytoplasmic membrane ferrous uptake system permease; mutations disrupt the ability of Escherichia coli to take up ferrous iron; GTP-binding protein which requires GTP for efficient iron(II) uptake; ferrous iron transport protein B 3383260..3385581 Shigella boydii Sb227 3782381 YP_409714.1 CDS yhgG NC_007613.1 3385581 3385817 D hypothetical protein 3385581..3385817 Shigella boydii Sb227 3782382 YP_409715.1 CDS yhgA NC_007613.1 3386020 3386898 D Code: S; COG: COG5464; hypothetical protein 3386020..3386898 Shigella boydii Sb227 3782383 YP_409716.1 CDS bioH NC_007613.1 3386927 3387697 R biotin biosynthesis; reaction prior to pimeloyl CoA; Shows carboxylesterase activity with a preference for short chain fatty acid esters; involved in pimeloyl-CoA synthesis; carboxylesterase BioH complement(3386927..3387697) Shigella boydii Sb227 3782385 YP_409717.2 CDS yhgH NC_007613.1 3387735 3388418 D involved in high-affinity gluconate transport; gluconate periplasmic binding protein 3387735..3388418 Shigella boydii Sb227 3782384 YP_409718.1 CDS yhgI NC_007613.1 3388477 3389052 D cytoplasmic protein that may be involved in the utilization of double-stranded DNA as a carbon source; DNA uptake protein 3388477..3389052 Shigella boydii Sb227 3782386 YP_409719.1 CDS gntT NC_007613.1 3389413 3390729 D Code: GE; COG: COG2610; high-affinity transport of gluconate/gluconate permease 3389413..3390729 Shigella boydii Sb227 3782387 YP_409720.1 CDS malQ NC_007613.1 3390774 3392858 R amylomaltase; amylomaltase; acts to release glucose from maltodextrins; 4-alpha-glucanotransferase complement(3390774..3392858) Shigella boydii Sb227 3782388 YP_409721.1 CDS malP NC_007613.1 3392868 3395261 R Code: G; COG: COG0058; maltodextrin phosphorylase complement(3392868..3395261) Shigella boydii Sb227 3782389 YP_409722.1 CDS malT NC_007613.1 3395873 3398578 D Positively regulates the transcription of the maltose regulon whose gene products are responsible for uptake and catabolism of malto-oligosaccharides; transcriptional regulator MalT 3395873..3398578 Shigella boydii Sb227 3782390 YP_409723.1 CDS yhgKJ NC_007613.1 3398621 3399640 R catalyzes the conversion of terminal3'-phosphate of RNA to the 2',3'-cyclicphosphodiester; RNA 3'-terminal-phosphate cyclase complement(3398621..3399640) Shigella boydii Sb227 3782391 YP_409724.1 CDS rtcB NC_007613.1 3399641 3400867 R Code: S; COG: COG1690; hypothetical protein complement(3399641..3400867) Shigella boydii Sb227 3782392 YP_409725.1 CDS rtcR NC_007613.1 3401056 3402654 D Code: KT; COG: COG4650; 2-component regulator 3401056..3402654 Shigella boydii Sb227 3782393 YP_409726.1 CDS glpR NC_007613.1 3402636 3403394 R represses the glpD, glpFK, glpTQ, and glpACB operons involved in glycerol-3-phosphate metabolism; DNA-binding transcriptional repressor GlpR complement(3402636..3403394) Shigella boydii Sb227 3782394 YP_409727.1 CDS glpG NC_007613.1 3403411 3404241 R protease responsible for the cleavage between Ser and Asp residues of proteins in regions of high local hydrophilicity; intramembrane serine protease GlpG complement(3403411..3404241) Shigella boydii Sb227 3782395 YP_409728.1 CDS glpE NC_007613.1 3404286 3404612 R belongs to rhodanese family; thiosulfate thiotransferase; in Escherichia coli this enzyme catalyzes the formation of thiocyanate from thiosulfate and cyanide with low efficiency; contains an active site cysteine; thiosulfate sulfurtransferase complement(3404286..3404612) Shigella boydii Sb227 3782396 YP_409729.1 CDS glpD NC_007613.1 3404802 3406307 D in Escherichia coli this homodimeric enzyme is expressed under aerobic conditions; anaerobic expression is repressed by the arcAB system; converts sn-glycerol-3-phosphate and ubiquinone-8 to dihydroxy acetone phosphate and ubiquinol-8; associates with the cytoplasmic membrane; glycerol-3-phosphate dehydrogenase 3404802..3406307 Shigella boydii Sb227 3782397 YP_409730.1 CDS insB NC_007613.1 3406773 3407285 R Code: L; COG: COG1662; IS1 ORF2 complement(3406773..3407285) Shigella boydii Sb227 3782398 YP_409731.1 CDS SBO_3416 NC_007613.1 3407350 3407532 D IS1 encoded protein 3407350..3407532 Shigella boydii Sb227 3782399 YP_409732.1 CDS SBO_3417 NC_007613.1 3407498 3407740 R hypothetical protein complement(3407498..3407740) Shigella boydii Sb227 3782400 YP_409733.1 CDS SBO_3418 NC_007613.1 3407743 3408510 R hypothetical protein complement(3407743..3408510) Shigella boydii Sb227 3782401 YP_409734.1 CDS SBO_3419 NC_007613.1 3408513 3409223 R hypothetical protein complement(3408513..3409223) Shigella boydii Sb227 3782402 YP_409735.1 CDS SBO_3420 NC_007613.1 3409239 3409613 R hypothetical protein complement(3409239..3409613) Shigella boydii Sb227 3782403 YP_409736.1 CDS SBO_3421 NC_007613.1 3409647 3410744 R Code: P; COG: COG0226; hypothetical protein complement(3409647..3410744) Shigella boydii Sb227 3782404 YP_409737.1 CDS SBO_3422 NC_007613.1 3411093 3411980 R Code: L; COG: COG2801; IS629 ORF2 complement(3411093..3411980) Shigella boydii Sb227 3782405 YP_409738.1 CDS SBO_3423 NC_007613.1 3411980 3412255 R Code: L; COG: COG2963; IS629 ORF1 complement(3411980..3412255) Shigella boydii Sb227 3782406 YP_409739.1 CDS SBO_3424 NC_007613.1 3412358 3413188 R Code: L; COG: COG3385; IS4 orf complement(3412358..3413188) Shigella boydii Sb227 3782407 YP_409740.1 CDS SBO_3425 NC_007613.1 3413202 3413525 R IS4 orf complement(3413202..3413525) Shigella boydii Sb227 3782408 YP_409741.1 CDS glgP NC_007613.1 3413625 3416072 R Code: G; COG: COG0058; glycogen phosphorylase complement(3413625..3416072) Shigella boydii Sb227 3782409 YP_409742.1 CDS glgA NC_007613.1 3416091 3417524 R catalyzes the formation of alpha-1,4-glucan chains from ADP-glucose; glycogen synthase complement(3416091..3417524) Shigella boydii Sb227 3782410 YP_409743.1 CDS glgC NC_007613.1 3417524 3418819 R catalyzes the formation of ADP-glucose and diphosphate from ATP and alpha-D-glucose 1-phosphate; glucose-1-phosphate adenylyltransferase complement(3417524..3418819) Shigella boydii Sb227 3782411 YP_409744.1 CDS glgX NC_007613.1 3418837 3420810 R part of glycogen operon, a glycosyl hydrolase, debranching enzyme; catalyzes the hydrolysis of the alpha-1,6-glucosidic linkages in partially depolymerized glycogen; glycogen debranching protein complement(3418837..3420810) Shigella boydii Sb227 3782412 YP_409745.1 CDS glgB NC_007613.1 3420807 3422993 R catalyzes the transfer of a segment of a 1,4-alpha-D-glucan chain to a primary hydroxy group in a similar glucan chain; glycogen branching protein complement(3420807..3422993) Shigella boydii Sb227 3782413 YP_409746.1 CDS asd NC_007613.1 3423266 3424369 R catalyzes the formation of 4-aspartyl phosphate from aspartate 4-semialdehyde; aspartate-semialdehyde dehydrogenase complement(3423266..3424369) Shigella boydii Sb227 3782414 YP_409747.1 CDS yhgN NC_007613.1 3424561 3425154 D YhgN; Ec0197; hydrolyzes nucleoside triphosphates with an O6 atom-containing purine base to nucleoside monophosphate and pyrophosphate; seems to play a role in the elimination of aberrant purine-derived nucleotides containing the 6-keto group; shows preference for deoxyinosine triphosphate and xanthosine triphosphate over standard nucleoside triphosphates (dATP, dCTP, dGTP, and dTTP); dITP- and XTP- hydrolase 3424561..3425154 Shigella boydii Sb227 3782415 YP_409748.1 CDS gntU NC_007613.1 3425211 3426551 R Code: GE; COG: COG2610; low affinity gluconate transporter complement(3425211..3426551) Shigella boydii Sb227 3782416 YP_409749.2 CDS gntK NC_007613.1 3426555 3427082 R thermoresistant; thermoresistant; catalyzes the formation of 6-phospho-D-gluconate from gluconate; gluconate kinase complement(3426555..3427082) Shigella boydii Sb227 3782417 YP_409750.1 CDS gntR NC_007613.1 3427221 3428216 R regulator of gnt operon; Code: K; COG: COG1609; regulator of gluconate operon complement(3427221..3428216) Shigella boydii Sb227 3782418 YP_409751.1 CDS yhhW NC_007613.1 3428440 3429135 R Code: R; COG: COG1741; hypothetical protein complement(3428440..3429135) Shigella boydii Sb227 3782419 YP_409752.1 CDS yhhX NC_007613.1 3429258 3430295 R Code: R; COG: COG0673; dehydrogenase complement(3429258..3430295) Shigella boydii Sb227 3782420 YP_409753.1 CDS yhhY NC_007613.1 3430627 3431115 D YhhY; regulated by the fur regulator; unknown function; acetyltransferase YhhY 3430627..3431115 Shigella boydii Sb227 3782421 YP_409754.1 CDS yhhZ NC_007613.1 3431352 3432551 D Code: S; COG: COG3157; hypothetical protein 3431352..3432551 Shigella boydii Sb227 3782422 YP_409755.1 CDS SBO_3440 NC_007613.1 3432656 3433675 D Code: L; COG: COG3547; transposase 3432656..3433675 Shigella boydii Sb227 3782423 YP_409756.1 CDS insB NC_007613.1 3433697 3434200 R Code: L; COG: COG1662; IS1 ORF2 complement(3433697..3434200) Shigella boydii Sb227 3782424 YP_409757.1 CDS SBO_3442 NC_007613.1 3434275 3434553 D IS1 encoded protein 3434275..3434553 Shigella boydii Sb227 3782425 YP_409758.1 CDS ggt NC_007613.1 3435193 3436926 R periplasmic enzyme; post-translationally processed into two subunits which are required for wild-type enzyme activity; cleaves the gammaglutamyl linkages of compounds such as glutathione and transfer the gammaglutamyl group to other amino acids and peptides; gamma-glutamyltranspeptidase complement(3435193..3436926) Shigella boydii Sb227 3782426 YP_409759.1 CDS yhhA NC_007613.1 3437046 3437486 D hypothetical protein 3437046..3437486 Shigella boydii Sb227 3782427 YP_409760.1 CDS ugpQ NC_007613.1 3437473 3438216 R hydrolyzes diesters during transport at the inner face of the cytoplasmic membrane to glycerol-3-phosphate and alcohol; induced when cells are starved for inorganic phosphate; glycerophosphodiester phosphodiesterase complement(3437473..3438216) Shigella boydii Sb227 3782428 YP_409761.2 CDS ugpC NC_007613.1 3438213 3439283 R part of the UgpABCE glycerol-3-phosphate uptake system; glycerol-3-phosphate transporter ATP-binding subunit complement(3438213..3439283) Shigella boydii Sb227 3782429 YP_409762.2 CDS livF NC_007613.1 3441327 3442040 R with LivGHMJ and LivGHMK is part of the high-affinity branched-chain amino acid transport system; LivFGHMK is specific for the transport of leucine, while LivFGHMJ is a transporter for leucine, isoleucine, and valine; leucine/isoleucine/valine transporter ATP-binding subunit complement(3441327..3442040) Shigella boydii Sb227 3782432 YP_409763.1 CDS livG NC_007613.1 3442042 3442809 R Part of the ABC transporter complexes LivFGHMJ and LivFGHMK involved in the high-affinity transport of branched-chain amino acids; LivFGHMK is specific for the transport of leucine, while LivFGHMJ is a transporter for leucine, isoleucine, and valine; leucine/isoleucine/valine transporter ATP-binding subunit complement(3442042..3442809) Shigella boydii Sb227 3782433 YP_409764.1 CDS livM NC_007613.1 3442806 3444083 R high-affinity branched-chain amino acid transport; Part of the ABC transporter complex LivFGHMJ and LivFGHMK involved in the high-affinity transport of branched-chain amino acids; LivFGHMK is specific for the transport of leucine, while LivFGHMJ is a transporter for leucine, isoleucine, and valine; leucine/isoleucine/valine transporter permease subunit complement(3442806..3444083) Shigella boydii Sb227 3782434 YP_409765.1 CDS livH NC_007613.1 3444080 3445006 R LivHMGF is the membrane component of the LIV-I/LS branched-chain amino acid transporter; branched-chain amino acid transporter permease subunit LivH complement(3444080..3445006) Shigella boydii Sb227 3782435 YP_409766.1 CDS livK NC_007613.1 3445054 3446163 R Code: E; COG: COG0683; high-affinity leucine-specific transport system periplasmic binding protein complement(3445054..3446163) Shigella boydii Sb227 3782436 YP_409767.1 CDS insB NC_007613.1 3446398 3446901 R Code: L; COG: COG1662; IS1 ORF2 complement(3446398..3446901) Shigella boydii Sb227 3782437 YP_409768.1 CDS SBO_3455 NC_007613.1 3446994 3447164 D IS1 encoded protein 3446994..3447164 Shigella boydii Sb227 3782438 YP_409769.1 CDS yhhK NC_007613.1 3447363 3447746 D hypothetical protein 3447363..3447746 Shigella boydii Sb227 3782439 YP_409770.1 CDS livJ NC_007613.1 3447945 3449105 R Code: E; COG: COG0683; high-affinity amino acid transport system periplasmic binding protein complement(3447945..3449105) Shigella boydii Sb227 3782440 YP_409771.1 CDS rpoH NC_007613.1 3449319 3450173 R regulation of proteins induced at high temperatures; binds with the catalytic core of RNA polymerase to produce the holoenzyme; this sigma factor is responsible for the expression of heat shock promoters; RNA polymerase factor sigma-32 complement(3449319..3450173) Shigella boydii Sb227 3782441 YP_409772.1 CDS ftsX NC_007613.1 3450418 3451476 R ABC transporter, membrane protein; cell division protein FtsX complement(3450418..3451476) Shigella boydii Sb227 3782442 YP_409773.1 CDS ftsE NC_007613.1 3451469 3452137 R ATP-binding protein of an ATP-binding cassette transporter; when bound to FtsX, FtsEX localizes to the cell division site and plays a role in the assembly or stability of the septal ring under low-salt growth conditions; cell division protein FtsE complement(3451469..3452137) Shigella boydii Sb227 3782443 YP_409774.1 CDS ftsY NC_007613.1 3452140 3453633 R signal recognition protein receptor; functions in the targeting and insertion of membrane proteins; cell division protein FtsY complement(3452140..3453633) Shigella boydii Sb227 3782444 YP_409775.1 CDS rsmD NC_007613.1 3453783 3454379 D catalyzes the methylation of 16S rRNA at position G966; 16S rRNA m(2)G966-methyltransferase 3453783..3454379 Shigella boydii Sb227 3782445 YP_409776.1 CDS yhhL NC_007613.1 3454369 3454638 D Code: S; COG: COG3776; hypothetical protein 3454369..3454638 Shigella boydii Sb227 3782446 YP_409777.1 CDS yhhM NC_007613.1 3454641 3455000 R receptor complement(3454641..3455000) Shigella boydii Sb227 3782447 YP_409778.1 CDS yhhN NC_007613.1 3455141 3455767 D Code: S; COG: COG3714; hypothetical protein 3455141..3455767 Shigella boydii Sb227 3782448 YP_409779.1 CDS zntA NC_007613.1 3455841 3458039 D P-type ATPase involved in the export of lead, cadmium, zinc and mercury; zinc/cadmium/mercury/lead-transporting ATPase 3455841..3458039 Shigella boydii Sb227 3782449 YP_409780.1 CDS yhhP NC_007613.1 3458141 3458386 R TusA; transfers sulfur to TusBCD complex; involved in thiouridation of U34 position of some tRNAs; sulfur transfer protein SirA complement(3458141..3458386) Shigella boydii Sb227 3782450 YP_409781.1 CDS yhhQ NC_007613.1 3458607 3459272 D Code: S; COG: COG1738; hypothetical protein 3458607..3459272 Shigella boydii Sb227 3782451 YP_409782.2 CDS SBO_3469 NC_007613.1 3459345 3459902 D hypothetical protein 3459345..3459902 Shigella boydii Sb227 3782452 YP_409783.2 CDS yhhS NC_007613.1 3459906 3461123 R Code: GEPR; COG: COG0477; major facilitator superfamily transporter complement(3459906..3461123) Shigella boydii Sb227 3782453 YP_409784.1 CDS yhhT NC_007613.1 3461174 3462091 D Code: R; COG: COG0628; hypothetical protein 3461174..3462091 Shigella boydii Sb227 3782454 YP_409785.1 CDS yhhU NC_007613.1 3462346 3462933 D Code: H; COG: COG2091; holo-(acyl carrier protein) synthase 2 3462346..3462933 Shigella boydii Sb227 3782455 YP_409786.1 CDS nikA NC_007613.1 3463044 3464618 D Code: E; COG: COG0747; periplasmic binding protein for nickel 3463044..3464618 Shigella boydii Sb227 3782456 YP_409787.1 CDS nikB NC_007613.1 3464618 3465562 D transport of nickel, membrane protein; with NikACDE is involved in nickel transport into the cell; nickel transporter permease NikB 3464618..3465562 Shigella boydii Sb227 3782457 YP_409788.1 CDS nikC NC_007613.1 3465559 3466392 D transport of nickel, membrane protein; with NikABDE is involved in nickel transport into the cell; nickel transporter permease NikC 3465559..3466392 Shigella boydii Sb227 3782458 YP_409789.1 CDS nikD NC_007613.1 3466392 3467156 D with NikABCE is involved in nickel transport into the cell; nickel transporter ATP-binding protein NikD 3466392..3467156 Shigella boydii Sb227 3782459 YP_409790.1 CDS nikE NC_007613.1 3467153 3467959 D with NikABCD is involved with nickel transport into the cell; nickel transporter ATP-binding protein NikE 3467153..3467959 Shigella boydii Sb227 3782460 YP_409791.1 CDS yhhG NC_007613.1 3467965 3468366 D Inhibits transcription at high concentrations of nickel; nickel responsive regulator 3467965..3468366 Shigella boydii Sb227 3782461 YP_409792.1 CDS hicB NC_007613.1 3468486 3468845 R Code: S; COG: COG4226; hypothetical protein complement(3468486..3468845) Shigella boydii Sb227 3782462 YP_409793.1 CDS yhhJ NC_007613.1 3469190 3470317 R Code: V; COG: COG0842; transporter complement(3469190..3470317) Shigella boydii Sb227 3782463 YP_409794.1 CDS yhiH NC_007613.1 3470314 3472998 R Code: V; COG: COG1131; ABC transporter ATP-binding protein complement(3470314..3472998) Shigella boydii Sb227 3782464 YP_409795.1 CDS yhiI NC_007613.1 3473046 3474113 R Code: M; COG: COG0845; hypothetical protein complement(3473046..3474113) Shigella boydii Sb227 3782465 YP_409796.1 CDS insB NC_007613.1 3475025 3475528 R Code: L; COG: COG1662; IS1 ORF2 complement(3475025..3475528) Shigella boydii Sb227 3782466 YP_409797.1 CDS SBO_3484 NC_007613.1 3475603 3475815 D IS1 encoded protein 3475603..3475815 Shigella boydii Sb227 3782467 YP_409798.1 CDS yhiJ NC_007613.1 3475777 3476790 R hypothetical protein complement(3475777..3476790) Shigella boydii Sb227 3782468 YP_409799.1 CDS yhiL NC_007613.1 3477052 3478065 R hypothetical protein complement(3477052..3478065) Shigella boydii Sb227 3782469 YP_409800.1 CDS SBO_3487 NC_007613.1 3478998 3479168 R IS1 encoded protein complement(3478998..3479168) Shigella boydii Sb227 3782470 YP_409801.1 CDS insB NC_007613.1 3479251 3479763 D Code: L; COG: COG1662; IS1 ORF2 3479251..3479763 Shigella boydii Sb227 3782471 YP_409802.1 CDS yhiM NC_007613.1 3479800 3480852 D hypothetical protein 3479800..3480852 Shigella boydii Sb227 3782472 YP_409803.1 CDS yhiN NC_007613.1 3481167 3482369 R Code: R; COG: COG2081; hypothetical protein complement(3481167..3482369) Shigella boydii Sb227 3782473 YP_409804.1 CDS pitA NC_007613.1 3482601 3484100 D Code: P; COG: COG0306; low affinity phosphate transport 3482601..3484100 Shigella boydii Sb227 3782474 YP_409805.1 CDS yhiO NC_007613.1 3484344 3484679 R ppGpp-dependent, membrane associated, stress protein produced under conditions of nutrient deprivation, osmotic shock and oxidative stress; universal stress protein UspB complement(3484344..3484679) Shigella boydii Sb227 3782475 YP_409806.1 CDS uspA NC_007613.1 3485070 3485504 D possible broad regulatory function; Code: T; COG: COG0589; universal stress protein 3485070..3485504 Shigella boydii Sb227 3782476 YP_409807.1 CDS yhiP NC_007613.1 3485822 3487291 D member of the POT family of peptide transporters; probable proton-dependent peptide transporter function; inner membrane transporter YhiP 3485822..3487291 Shigella boydii Sb227 3782477 YP_409808.1 CDS yhiQ NC_007613.1 3487340 3488092 R predicted SAM-dependent methyltransferase; methyltransferase complement(3487340..3488092) Shigella boydii Sb227 3782478 YP_409809.1 CDS prlC NC_007613.1 3488100 3490142 R Code: E; COG: COG0339; oligopeptidase A complement(3488100..3490142) Shigella boydii Sb227 3782479 YP_409810.1 CDS yhiR NC_007613.1 3490345 3491187 D Code: R; COG: COG2961; hypothetical protein 3490345..3491187 Shigella boydii Sb227 3782480 YP_409811.1 CDS gor NC_007613.1 3491259 3492611 D catalyzes the reduction of 2 glutathione to glutathione disulfide; maintains high levels of reduced glutathione in the cytosol; involved in redox regulation and oxidative defense; glutathione reductase 3491259..3492611 Shigella boydii Sb227 3782481 YP_409812.1 CDS arsR NC_007613.1 3493487 3493840 D regulates the expression of of the arsRBC involved in resistance to arsenic; DNA-binding transcriptional repressor ArsR 3493487..3493840 Shigella boydii Sb227 3782482 YP_409813.1 CDS arsB NC_007613.1 3493874 3495184 D Code: P; COG: COG1055; arsenical pump membrane protein 3493874..3495184 Shigella boydii Sb227 3782483 YP_409814.1 CDS arsC NC_007613.1 3495197 3495622 D Code: P; COG: COG1393; arsenate reductase 3495197..3495622 Shigella boydii Sb227 3782484 YP_409815.1 CDS SBO_3502 NC_007613.1 3495756 3496052 R Code: K; COG: COG0640; hypothetical protein complement(3495756..3496052) Shigella boydii Sb227 3782485 YP_409816.1 CDS SBO_3503 NC_007613.1 3496413 3497252 R Code: L; COG: COG2801; IS911 ORF2 complement(3496413..3497252) Shigella boydii Sb227 3782486 YP_409817.1 CDS yhiS NC_007613.1 3498055 3498849 D hypothetical protein 3498055..3498849 Shigella boydii Sb227 3782487 YP_409818.1 CDS slp NC_007613.1 3499494 3500093 D outer membrane protein induced after carbon starvation; Code: M; COG: COG3065; hypothetical protein 3499494..3500093 Shigella boydii Sb227 3782488 YP_409819.1 CDS yhiF NC_007613.1 3500249 3500779 D Code: K; COG: COG2771; hypothetical protein 3500249..3500779 Shigella boydii Sb227 3782489 YP_409820.1 CDS hdeB NC_007613.1 3501532 3501870 R acid-resistance protein complement(3501532..3501870) Shigella boydii Sb227 3782491 YP_409821.1 CDS hdeA NC_007613.1 3501974 3502306 R inactive form; acid-resistance protein complement(3501974..3502306) Shigella boydii Sb227 3782492 YP_409822.1 CDS hdeD NC_007613.1 3502561 3503133 D Code: S; COG: COG3247; acid-resistance membrane protein 3502561..3503133 Shigella boydii Sb227 3782493 YP_409823.1 CDS yhiE NC_007613.1 3503932 3504459 D Code: K; COG: COG2771; hypothetical protein 3503932..3504459 Shigella boydii Sb227 3782494 YP_409824.1 CDS yhiU NC_007613.1 3504798 3505955 D with MdtF and tolC is involved in resistance to rhodamine 6G, erythromycin, doxorubicin and other compounds; multidrug efflux system protein MdtE 3504798..3505955 Shigella boydii Sb227 3782495 YP_409825.1 CDS yhiV NC_007613.1 3505980 3509093 D Code: V; COG: COG0841; transport system permease 3505980..3509093 Shigella boydii Sb227 3782496 YP_409826.1 CDS yhiW NC_007613.1 3509456 3510184 R Code: K; COG: COG2207; ARAC-type regulatory protein complement(3509456..3510184) Shigella boydii Sb227 3782497 YP_409827.1 CDS yhiX NC_007613.1 3510552 3511376 R regulates genes in response to acid and/or during stationary phase; DNA-binding transcriptional regulator GadX complement(3510552..3511376) Shigella boydii Sb227 3782498 YP_409828.1 CDS gadA NC_007613.1 3511746 3513146 R Code: E; COG: COG0076; glutamate decarboxylase complement(3511746..3513146) Shigella boydii Sb227 3782499 YP_409829.1 CDS yhjA NC_007613.1 3513357 3514754 R Code: P; COG: COG1858; cytochrome C peroxidase complement(3513357..3514754) Shigella boydii Sb227 3782500 YP_409830.1 CDS treF NC_007613.1 3515158 3516807 D cytoplasmic; catalyzes the hydrolysis of trehalose to glucose; trehalase 3515158..3516807 Shigella boydii Sb227 3782501 YP_409831.1 CDS yhjB NC_007613.1 3516858 3517460 R Code: TK; COG: COG2197; regulator complement(3516858..3517460) Shigella boydii Sb227 3782502 YP_409832.1 CDS yhjC NC_007613.1 3517908 3518879 D Code: K; COG: COG0583; LysR family transcriptional regulator 3517908..3518879 Shigella boydii Sb227 3782503 YP_409833.1 CDS yhjD NC_007613.1 3518928 3519941 D Code: S; COG: COG1295; hypothetical protein 3518928..3519941 Shigella boydii Sb227 3782504 YP_409834.1 CDS yhjE NC_007613.1 3520352 3521674 D Code: GEPR; COG: COG0477; transporter 3520352..3521674 Shigella boydii Sb227 3782505 YP_409835.1 CDS yhjG NC_007613.1 3521908 3523983 R Code: M; COG: COG2982; hypothetical protein complement(3521908..3523983) Shigella boydii Sb227 3782506 YP_409836.1 CDS yhjH NC_007613.1 3524038 3524808 R in Escherichia coli this protein is involved in flagellar function; EAL domain-containing protein complement(3524038..3524808) Shigella boydii Sb227 3782507 YP_409837.1 CDS kdgK NC_007613.1 3524818 3525966 D Code: G; COG: COG0524; ketodeoxygluconokinase 3524818..3525966 Shigella boydii Sb227 3782508 YP_409838.1 CDS yhjJ NC_007613.1 3526062 3527558 R Code: R; COG: COG0612; hypothetical protein complement(3526062..3527558) Shigella boydii Sb227 3782509 YP_409839.1 CDS dctA NC_007613.1 3527778 3529064 R involved in the transport of C4-dicarboxylates across the membrane; C4-dicarboxylate transporter DctA complement(3527778..3529064) Shigella boydii Sb227 3782510 YP_409840.1 CDS yhjK NC_007613.1 3529247 3531202 R HmsP in Yersinia pestis plays a role in invasion of epithelial cells; the EAL-domain portion of HmsP from Y. pestis shows phosphodiesterase activity which is required for the inhibition of biofilm formation; inner membrane protein; similar to a phosphodiesterase protein from E. coli; phosphodiesterase complement(3529247..3531202) Shigella boydii Sb227 3782511 YP_409841.1 CDS yhjL NC_007613.1 3531317 3534478 R Code: R; COG: COG0457; oxidoreductase subunit complement(3531317..3534478) Shigella boydii Sb227 3782512 YP_409842.1 CDS yhjM NC_007613.1 3534772 3535878 R catalyzes the hydrolysis of 1,4-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; endo-1,4-D-glucanase complement(3534772..3535878) Shigella boydii Sb227 3782513 YP_409843.1 CDS yhjN NC_007613.1 3535885 3538224 R binds the cellulose synthase activator, bis-(3'-5') cyclic diguanylic acid (c-di-GMP); cellulose synthase regulator protein complement(3535885..3538224) Shigella boydii Sb227 3782514 YP_409844.2 CDS bcsA NC_007613.1 3538235 3540847 R polymerizes uridine 5'-diphosphate glucose to cellulose; acts with BcsB, BcsZ and BcsC in cellulose biosynthesis; cellulose synthase catalytic subunit complement(3538235..3540847) Shigella boydii Sb227 3782515 YP_409845.1 CDS yhjQ NC_007613.1 3540844 3541572 R Code: D; COG: COG1192; cell division protein complement(3540844..3541572) Shigella boydii Sb227 3782516 YP_409846.1 CDS yhjR NC_007613.1 3541608 3541796 R hypothetical protein complement(3541608..3541796) Shigella boydii Sb227 3782517 YP_409847.1 CDS yhjS NC_007613.1 3542069 3543640 D protease 3542069..3543640 Shigella boydii Sb227 3782518 YP_409848.1 CDS yhjT NC_007613.1 3543640 3543828 D hypothetical protein 3543640..3543828 Shigella boydii Sb227 3782519 YP_409849.1 CDS yhjU NC_007613.1 3543825 3545504 D hypothetical protein 3543825..3545504 Shigella boydii Sb227 3782520 YP_409850.1 CDS yhjV NC_007613.1 3546174 3547445 D Code: E; COG: COG0814; transporter protein 3546174..3547445 Shigella boydii Sb227 3782521 YP_409851.1 CDS dppF NC_007613.1 3547475 3548479 R Part of the ABC transporter complex DppABCDF involved in the transport of dipeptides; dipeptide transporter ATP-binding subunit complement(3547475..3548479) Shigella boydii Sb227 3782522 YP_409852.1 CDS dppD NC_007613.1 3548476 3549459 R DppD and DppF are the ATP-binding components of the ABC dipeptide transport system DppABCDF; dipeptide transporter ATP-binding subunit complement(3548476..3549459) Shigella boydii Sb227 3782523 YP_409853.1 CDS dppC NC_007613.1 3549470 3550372 R Code: EP; COG: COG1173; dipeptide transporter complement(3549470..3550372) Shigella boydii Sb227 3782524 YP_409854.1 CDS dppB NC_007613.1 3550382 3551401 R transports peptides consisting of two or three amino acids; dipeptide transporter permease DppB complement(3550382..3551401) Shigella boydii Sb227 3782525 YP_409855.2 CDS yhjW NC_007613.1 3554228 3555919 R catalyzes the addition of a phosphoethanolamine group to the outer Kdo residue of lipopolysaccharide; phosphoethanolamine transferase complement(3554228..3555919) Shigella boydii Sb227 3782528 YP_409856.1 CDS lpfA NC_007613.1 3556159 3556701 R Code: NU; COG: COG3539; major fimbrial subunit complement(3556159..3556701) Shigella boydii Sb227 3782529 YP_409857.1 CDS SBO_3547 NC_007613.1 3556707 3556964 R IS1 encoded protein complement(3556707..3556964) Shigella boydii Sb227 3782530 YP_409858.1 CDS insB NC_007613.1 3557039 3557542 D Code: L; COG: COG1662; IS1 ORF2 3557039..3557542 Shigella boydii Sb227 3782531 YP_409859.1 CDS yhjX NC_007613.1 3557680 3558882 R Code: GEPR; COG: COG0477; resistance protein complement(3557680..3558882) Shigella boydii Sb227 3782532 YP_409860.1 CDS yhjY NC_007613.1 3559110 3559814 R Code: N; COG: COG5571; lipase complement(3559110..3559814) Shigella boydii Sb227 3782533 YP_409861.1 CDS tag NC_007613.1 3559966 3560529 D constitutive, catalyzes the hydrolysis of alkylated DNA, releasing 3-methyladenine; 3-methyladenine DNA glycosylase 3559966..3560529 Shigella boydii Sb227 3782534 YP_409862.1 CDS yiaC NC_007613.1 3560526 3560966 D Code: KR; COG: COG0454; hypothetical protein 3560526..3560966 Shigella boydii Sb227 3782535 YP_409863.1 CDS bisC NC_007613.1 3560935 3563154 R Code: C; COG: COG0243; biotin sulfoxide reductase complement(3560935..3563154) Shigella boydii Sb227 3782536 YP_409864.1 CDS yiaD NC_007613.1 3563421 3564080 D Code: M; COG: COG2885; outer membrane lipoprotein 3563421..3564080 Shigella boydii Sb227 3782537 YP_409865.2 CDS yiaE NC_007613.1 3564184 3565158 D Code: CHR; COG: COG1052; dehydrogenase 3564184..3565158 Shigella boydii Sb227 3782538 YP_409866.1 CDS yiaF NC_007613.1 3565208 3566038 R hypothetical protein complement(3565208..3566038) Shigella boydii Sb227 3782539 YP_409867.1 CDS yiaG NC_007613.1 3566351 3566641 D Code: K; COG: COG2944; transcriptional regulator 3566351..3566641 Shigella boydii Sb227 3782540 YP_409868.1 CDS cspA NC_007613.1 3566922 3567134 D transcriptional activator of hns; Code: K; COG: COG1278; major cold shock protein 3566922..3567134 Shigella boydii Sb227 3782541 YP_409869.1 CDS yiaZ NC_007613.1 3567322 3567474 R small toxic polypeptide complement(3567322..3567474) Shigella boydii Sb227 3782542 YP_409870.1 CDS SBO_3560 NC_007613.1 3567638 3567820 R IS1 encoded protein complement(3567638..3567820) Shigella boydii Sb227 3782543 YP_409871.1 CDS insB NC_007613.1 3567895 3568398 D Code: L; COG: COG1662; IS1 ORF2 3567895..3568398 Shigella boydii Sb227 3782544 YP_409872.1 CDS SBO_3562 NC_007613.1 3568392 3568634 R IS1 encoded protein complement(3568392..3568634) Shigella boydii Sb227 3782545 YP_409873.1 CDS insB NC_007613.1 3568709 3569212 D Code: L; COG: COG1662; IS1 ORF2 3568709..3569212 Shigella boydii Sb227 3782546 YP_409874.1 CDS glyS NC_007613.1 3569353 3571422 R glycine--tRNA ligase beta chain; glyS; class II aminoacyl tRNA synthetase; tetramer of alpha(2)beta(2); catalyzes a two-step reaction; first charging a glycine molecule by linking the carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA; glycyl-tRNA synthetase subunit beta complement(3569353..3571422) Shigella boydii Sb227 3782547 YP_409875.1 CDS glyQ NC_007613.1 3571432 3572343 R glycine--tRNA ligase alpha chain; GlyRS; class II aminoacyl tRNA synthetase; tetramer of alpha(2)beta(2); catalyzes a two-step reaction; first charging a glycine molecule by linking its carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA; glycyl-tRNA synthetase subunit alpha complement(3571432..3572343) Shigella boydii Sb227 3782548 YP_409876.1 CDS SBO_3566 NC_007613.1 3572438 3572737 R lipoprotein complement(3572438..3572737) Shigella boydii Sb227 3782549 YP_409877.2 CDS SBO_3567 NC_007613.1 3573382 3574287 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 3573382..3574287 Shigella boydii Sb227 3782550 YP_409878.1 CDS insB NC_007613.1 3574502 3575005 D Code: L; COG: COG1662; IS1 ORF2 3574502..3575005 Shigella boydii Sb227 3782551 YP_409879.1 CDS yiaH NC_007613.1 3575024 3576019 D Code: S; COG: COG3274; hypothetical protein 3575024..3576019 Shigella boydii Sb227 3782552 YP_409880.1 CDS yiaA NC_007613.1 3576061 3576501 R Code: S; COG: COG4682; hypothetical protein complement(3576061..3576501) Shigella boydii Sb227 3782553 YP_409881.1 CDS yiaB NC_007613.1 3576544 3576897 R Code: S; COG: COG4682; hypothetical protein complement(3576544..3576897) Shigella boydii Sb227 3782554 YP_409882.1 CDS xylB NC_007613.1 3577174 3578493 R Code: G; COG: COG1070; xylulokinase complement(3577174..3578493) Shigella boydii Sb227 3782555 YP_409883.1 CDS xylA NC_007613.1 3578610 3579887 R catalyzes the interconversion of D-xylose to D-xylulose; xylose isomerase complement(3578610..3579887) Shigella boydii Sb227 3782556 YP_409884.1 CDS xylF NC_007613.1 3580253 3581224 D periplasmic substrate-binding component of the ATP-dependent xylose transport system; high affinity; D-xylose transporter subunit XylF 3580253..3581224 Shigella boydii Sb227 3782557 YP_409885.1 CDS xylG NC_007613.1 3581302 3582843 D with XylFH is part of the high affinity xylose ABC transporter; xylose transporter ATP-binding subunit 3581302..3582843 Shigella boydii Sb227 3782558 YP_409886.1 CDS xylH NC_007613.1 3582821 3584002 D Code: G; COG: COG4214; xylose transport, membrane component 3582821..3584002 Shigella boydii Sb227 3782559 YP_409887.1 CDS xylR NC_007613.1 3584080 3585258 D Code: K; COG: COG1609; regulator of xyl operon 3584080..3585258 Shigella boydii Sb227 3782560 YP_409888.1 CDS bax NC_007613.1 3585366 3586190 R Code: R; COG: COG2992; hypothetical protein complement(3585366..3586190) Shigella boydii Sb227 3782561 YP_409889.1 CDS malS NC_007613.1 3586510 3588540 D periplasmic enzyme that degrades maltodextrins that enter via the outer membrane porin LamB; hydrolyzes alpha-(1,4) glycosidic linkages; contains internal disulfide bonds; periplasmic alpha-amylase 3586510..3588540 Shigella boydii Sb227 3782562 YP_409890.1 CDS avtA NC_007613.1 3588718 3589971 D valine-pyruvate transaminase; transaminase C; transaminase C; catalyzes transamination of alanine, valine, and 2-aminobutyrate with their respective 2-keto acids; also catalyzes terminal step in valine biosynthesis; valine--pyruvate transaminase 3588718..3589971 Shigella boydii Sb227 3782563 YP_409891.1 CDS yiaI NC_007613.1 3590122 3590595 R Code: C; COG: COG1142; hypothetical protein complement(3590122..3590595) Shigella boydii Sb227 3782564 YP_409892.1 CDS yiaJ NC_007613.1 3590697 3591545 R Code: K; COG: COG1414; regulator complement(3590697..3591545) Shigella boydii Sb227 3782565 YP_409893.1 CDS yiaK NC_007613.1 3591746 3592744 D NAD(P)H-dependent; catalyzes the reduction of 2,3-diketo-L-gulonate to 3-keto-L-gulonate; 2,3-diketo-L-gulonate reductase 3591746..3592744 Shigella boydii Sb227 3782566 YP_409894.1 CDS yiaL NC_007613.1 3592756 3593178 D Code: G; COG: COG2731; lipase 3592756..3593178 Shigella boydii Sb227 3782567 YP_409895.1 CDS yiaM NC_007613.1 3593342 3593815 D membrane-spanning protein involved in uptake of 2,3-diketo-L-gulonate; part of the tri-partite ATP-independent periplasmic transport system (TRAP) YiaMNO; 2,3-diketo-L-gulonate TRAP transporter small permease 3593342..3593815 Shigella boydii Sb227 3782568 YP_409896.1 CDS insB NC_007613.1 3595054 3595557 D Code: L; COG: COG1662; IS1 ORF2 3595054..3595557 Shigella boydii Sb227 3782570 YP_409897.1 CDS aldB NC_007613.1 3595875 3597503 R lactaldehyde dehydrogenase; Code: C; COG: COG1012; aldehyde dehydrogenase B complement(3595875..3597503) Shigella boydii Sb227 3782571 YP_409898.1 CDS yiaY NC_007613.1 3597578 3598729 R Code: C; COG: COG1454; alcohol dehydrogenase complement(3597578..3598729) Shigella boydii Sb227 3782572 YP_409899.1 CDS selB NC_007613.1 3598919 3600763 R Code: J; COG: COG3276; selenocysteinyl-tRNA-specific translation factor complement(3598919..3600763) Shigella boydii Sb227 3782573 YP_409900.1 CDS selA NC_007613.1 3600760 3602151 R L-seryl-tRNA (Ser) selenium transferase; catalyzes the formation of selenocysteinyl-tRNA(Sec) from seryl-tRNA(Sec) and L-selenophosphate in selenoprotein biosynthesis; selenocysteine synthase complement(3600760..3602151) Shigella boydii Sb227 3782574 YP_409901.1 CDS yibF NC_007613.1 3602249 3602857 R Code: O; COG: COG0625; glutathione S-transferase complement(3602249..3602857) Shigella boydii Sb227 3782575 YP_409902.1 CDS rhsA NC_007613.1 3603085 3607314 D protein in rhs element; Code: M; COG: COG3209; hypothetical protein 3603085..3607314 Shigella boydii Sb227 3782576 YP_409903.1 CDS yibG NC_007613.1 3607326 3607787 D hypothetical protein 3607326..3607787 Shigella boydii Sb227 3782577 YP_409904.1 CDS yibH NC_007613.1 3609392 3610528 R Code: V; COG: COG1566; hypothetical protein complement(3609392..3610528) Shigella boydii Sb227 3782578 YP_409905.1 CDS yibI NC_007613.1 3610531 3610893 R hypothetical protein complement(3610531..3610893) Shigella boydii Sb227 3782579 YP_409906.1 CDS mtlA NC_007613.1 3611430 3613343 D Code: G; COG: COG2213; PTS system mannitol-specific transporter subunit IIABC 3611430..3613343 Shigella boydii Sb227 3782580 YP_409907.1 CDS mtlD NC_007613.1 3613573 3614721 D Code: G; COG: COG0246; mannitol-1-phosphate 5-dehydrogenase 3613573..3614721 Shigella boydii Sb227 3782581 YP_409908.1 CDS mtlR NC_007613.1 3614721 3615308 D Acts as a repressor of the mtlAD operon; mannitol repressor protein 3614721..3615308 Shigella boydii Sb227 3782582 YP_409909.1 CDS SBO_3600 NC_007613.1 3615320 3615529 R hypothetical protein complement(3615320..3615529) Shigella boydii Sb227 3782583 YP_409910.1 CDS yibL NC_007613.1 3615814 3616176 D hypothetical protein 3615814..3616176 Shigella boydii Sb227 3782584 YP_409911.1 CDS SBO_3602 NC_007613.1 3616609 3616851 R IS1 encoded protein complement(3616609..3616851) Shigella boydii Sb227 3782585 YP_409912.1 CDS insB NC_007613.1 3616926 3617429 D Code: L; COG: COG1662; IS1 ORF2 3616926..3617429 Shigella boydii Sb227 3782586 YP_409913.1 CDS SBO_3604 NC_007613.1 3617496 3618179 D lipoprotein 3617496..3618179 Shigella boydii Sb227 3782587 YP_409914.1 CDS SBO_3605 NC_007613.1 3618223 3622278 D Code: UW; COG: COG5295; adhesin 3618223..3622278 Shigella boydii Sb227 3782588 YP_409915.2 CDS SBO_3606 NC_007613.1 3622690 3623595 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 3622690..3623595 Shigella boydii Sb227 3782589 YP_409916.1 CDS SBO_3607 NC_007613.1 3623570 3624409 D adhesin 3623570..3624409 Shigella boydii Sb227 3782590 YP_409917.1 CDS lldP NC_007613.1 3624777 3626432 D Code: C; COG: COG1620; L-lactate permease 3624777..3626432 Shigella boydii Sb227 3782591 YP_409918.1 CDS lldR NC_007613.1 3626432 3627208 D represses the lctPRD operon; DNA-binding transcriptional repressor LldR 3626432..3627208 Shigella boydii Sb227 3782592 YP_409919.1 CDS lldD NC_007613.1 3627205 3628395 D flavin mononucleotide-dependent dehydrogenase; functions in aerobic respiration and also has a role in anaerobic nitrate respiration; L-lactate dehydrogenase 3627205..3628395 Shigella boydii Sb227 3782593 YP_409920.1 CDS SBO_3611 NC_007613.1 3628638 3629834 D Code: L; COG: COG3547; ISSfl2 ORF 3628638..3629834 Shigella boydii Sb227 3782594 YP_409921.1 CDS yibK NC_007613.1 3630000 3630473 D member of the SPOUT superfamily of RNA methyltransferases; no methyltransferase activity observed with certain tRNA substrates; tRNA/rRNA methyltransferase YibK 3630000..3630473 Shigella boydii Sb227 3782595 YP_409922.1 CDS cysE NC_007613.1 3630526 3631347 R catalyzes the O-acetylation of serine; serine acetyltransferase complement(3630526..3631347) Shigella boydii Sb227 3782596 YP_409923.1 CDS gpsA NC_007613.1 3631427 3632446 R catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate; NAD(P)H-dependent glycerol-3-phosphate dehydrogenase complement(3631427..3632446) Shigella boydii Sb227 3782597 YP_409924.1 CDS secB NC_007613.1 3632446 3632913 R protein export; molecular chaperone; may bind to signal sequence; molecular chaperone that is required for the normal export of envelope proteins out of the cell cytoplasm; in Escherichia coli this proteins forms a homotetramer in the cytoplasm and delivers proteins to be exported to SecA; preprotein translocase subunit SecB complement(3632446..3632913) Shigella boydii Sb227 3782598 YP_409925.1 CDS grxC NC_007613.1 3632976 3633227 R Code: O; COG: COG0695; glutaredoxin 3 complement(3632976..3633227) Shigella boydii Sb227 3782599 YP_409926.1 CDS yibN NC_007613.1 3633369 3633800 R Code: P; COG: COG0607; hypothetical protein complement(3633369..3633800) Shigella boydii Sb227 3782600 YP_409927.1 CDS yibO NC_007613.1 3634045 3635589 D catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate; phosphoglyceromutase 3634045..3635589 Shigella boydii Sb227 3782601 YP_409928.1 CDS yibP NC_007613.1 3635599 3636882 D Code: D; COG: COG4942; hypothetical protein 3635599..3636882 Shigella boydii Sb227 3782602 YP_409929.1 CDS yibQ NC_007613.1 3637012 3637845 D Code: S; COG: COG2861; hypothetical protein 3637012..3637845 Shigella boydii Sb227 3782603 YP_409930.1 CDS tdh NC_007613.1 3639105 3640130 R converts threonine and NAD to 1,2-amino-3-oxobutanoate and NADH; functions in threonine catabolism; L-threonine 3-dehydrogenase complement(3639105..3640130) Shigella boydii Sb227 3782605 YP_409931.1 CDS kbl NC_007613.1 3640140 3641336 R glycine acetyltransferase; catalyzes the formation of 2-amino-3-oxobutanoate from acetyl-CoA and glycine; 2-amino-3-ketobutyrate coenzyme A ligase complement(3640140..3641336) Shigella boydii Sb227 3782606 YP_409932.1 CDS rfaD NC_007613.1 3641550 3642482 D catalyzes the interconversion between ADP-D-glycero-beta-D-manno-heptose and ADP-L-glycero-beta-D-manno-heptose; ADP-L-glycero-D-manno-heptose-6-epimerase 3641550..3642482 Shigella boydii Sb227 3782607 YP_409933.1 CDS rfaF NC_007613.1 3642492 3643538 D lipopolysaccharide core biosynthesis; catalyzes the transfer of the second heptose to the heptosyl-KDO2 moiety of the lipopolysaccharide inner core; ADP-heptose--LPS heptosyltransferase 3642492..3643538 Shigella boydii Sb227 3782608 YP_409934.1 CDS rfaC NC_007613.1 3643542 3644522 D lipopolysaccharide core biosynthesis; Code: M; COG: COG0859; ADP-heptose--LPS heptosyltransferase 3643542..3644522 Shigella boydii Sb227 3782609 YP_409935.1 CDS waaL NC_007613.1 3644592 3645845 R lipid A-core surface polymer ligase complement(3644592..3645845) Shigella boydii Sb227 3782610 YP_409936.1 CDS waaW NC_007613.1 3646959 3647984 R Code: M; COG: COG1442; UDP-galactose:(galactosyl) LPS alpha1,2-galactosyltransferase complement(3646959..3647984) Shigella boydii Sb227 3782611 YP_409937.1 CDS waaY NC_007613.1 3648010 3648702 R lipopolysaccharide core biosynthesis; lipopolysaccharide core biosynthesis protein complement(3648010..3648702) Shigella boydii Sb227 3782612 YP_409938.1 CDS waaJ NC_007613.1 3648712 3649707 R Code: M; COG: COG1442; lipopolysaccharide 1,2-glucosyltransferase complement(3648712..3649707) Shigella boydii Sb227 3782613 YP_409939.1 CDS waaI NC_007613.1 3649724 3650740 R Code: M; COG: COG1442; UDP-D-galactose:(glucosyl)lipopolysaccharide- alpha-1,3-D-galactosyltransferase complement(3649724..3650740) Shigella boydii Sb227 3782614 YP_409940.1 CDS rfaP NC_007613.1 3650756 3651553 R lipopolysaccharide core biosynthesis; phosphorylation of core heptose; attaches phosphate-containing substrate to LPS core; RfaP protein complement(3650756..3651553) Shigella boydii Sb227 3782615 YP_409941.1 CDS rfaG NC_007613.1 3651546 3652670 R lipopolysaccharide core biosynthesis; Code: M; COG: COG0438; glucosyltransferase I complement(3651546..3652670) Shigella boydii Sb227 3782616 YP_409942.1 CDS waaQ NC_007613.1 3652667 3653725 R Code: M; COG: COG0859; lipopolysaccharide core biosynthesis protein complement(3652667..3653725) Shigella boydii Sb227 3782617 YP_409943.1 CDS kdtA NC_007613.1 3654138 3655415 D KDO transferase; catalyzes the transfer of 2-keto-3-deoxy-D-manno-octulosonic acid to lipid A; 3-deoxy-D-manno-octulosonic-acid transferase 3654138..3655415 Shigella boydii Sb227 3782618 YP_409944.1 CDS coaD NC_007613.1 3655423 3655902 D Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA; phosphopantetheine adenylyltransferase 3655423..3655902 Shigella boydii Sb227 3782619 YP_409945.1 CDS mutM NC_007613.1 3655941 3656750 R Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases; formamidopyrimidine-DNA glycosylase complement(3655941..3656750) Shigella boydii Sb227 3782620 YP_409946.1 CDS rpmG NC_007613.1 3656848 3657015 R in Escherichia coli BM108, a mutation that results in lack of L33 synthesis had no effect on ribosome synthesis or function; there are paralogous genes in several bacterial genomes, and a CXXC motif for zinc binding and an upstream regulation region of the paralog lacking this motif that are regulated by zinc similar to other ribosomal proteins like L31; the proteins in this group lack the CXXC motif; 50S ribosomal protein L33 complement(3656848..3657015) Shigella boydii Sb227 3782621 YP_409947.1 CDS rpmB NC_007613.1 3657036 3657272 R required for 70S ribosome assembly; 50S ribosomal protein L28 complement(3657036..3657272) Shigella boydii Sb227 3782622 YP_409948.1 CDS radC NC_007613.1 3657489 3658163 R Involved in DNA double-strand break repair and recombination. Promotes the annealing of complementary single-stranded DNA and by simulation of RAD51 recombinase; DNA repair protein RadC complement(3657489..3658163) Shigella boydii Sb227 3782623 YP_409949.2 CDS dfp NC_007613.1 3658329 3659549 D flavoprotein affecting synthesis of DNA and pantothenate metabolism; catalyzes the conjugation of cysteine to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, which is then decarboxylated to form 4'-phosphopantotheine; bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase 3658329..3659549 Shigella boydii Sb227 3782624 YP_409950.1 CDS dut NC_007613.1 3659530 3659985 D catalyzes the formation of dUMP from dUTP; deoxyuridine 5'-triphosphate nucleotidohydrolase 3659530..3659985 Shigella boydii Sb227 3782625 YP_409951.2 CDS slmA NC_007613.1 3660092 3660688 D FtsZ binding protein; synthetically lethal with a defect in the Min system; this protein is the first identified nucleoid occlusion factor which works along with the Min system to properly position the FtsZ ring assembly; nucleoid occlusion protein 3660092..3660688 Shigella boydii Sb227 3782626 YP_409952.1 CDS pyrE NC_007613.1 3660725 3661366 R involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate; orotate phosphoribosyltransferase complement(3660725..3661366) Shigella boydii Sb227 3782627 YP_409953.1 CDS rph NC_007613.1 3661432 3662148 R RNase PH; tRNA nucleotidyltransferase; forms hexamers in Bacillus subtilis; phosphoroltic 3'-5' exoribonuclease; involved in maturation of tRNA precursors and removes terminal nucleotides near CCA acceptor arms of mature tRNAs; ribonuclease PH complement(3661432..3662148) Shigella boydii Sb227 3782628 YP_409954.1 CDS yicC NC_007613.1 3662275 3663138 D Code: S; COG: COG1561; hypothetical protein 3662275..3663138 Shigella boydii Sb227 3782629 YP_409955.1 CDS SBO_3647 NC_007613.1 3663101 3664588 D Code: L; COG: COG0582; integrase 3663101..3664588 Shigella boydii Sb227 3782630 YP_409956.1 CDS SBO_3648 NC_007613.1 3664684 3665532 D hypothetical protein 3664684..3665532 Shigella boydii Sb227 3782631 YP_409957.1 CDS SBO_3649 NC_007613.1 3665645 3665848 D Code: K; COG: COG3311; hypothetical protein 3665645..3665848 Shigella boydii Sb227 3782632 YP_409958.1 CDS SBO_3650 NC_007613.1 3666293 3667102 D anti-repressor protein 3666293..3667102 Shigella boydii Sb227 3782633 YP_409959.1 CDS SBO_3651 NC_007613.1 3667506 3668345 D Code: L; COG: COG2801; IS911 ORF2 3667506..3668345 Shigella boydii Sb227 3782634 YP_409960.1 CDS SBO_3653 NC_007613.1 3669825 3670898 D Code: NU; COG: COG3539; fimbrial protein 3669825..3670898 Shigella boydii Sb227 3782636 YP_409961.1 CDS pstS NC_007613.1 3671146 3672186 D Code: P; COG: COG0226; phosphate ABC transporter substrate-binding protein 3671146..3672186 Shigella boydii Sb227 3782637 YP_409962.1 CDS pstC NC_007613.1 3672273 3673232 D part of the ATP-dependent phosphate uptake system PstABCS responsible for inorganic phosphate (Pi) uptake under Pi starvation conditions; phosphate transporter permease subunit PstC 3672273..3673232 Shigella boydii Sb227 3782638 YP_409963.1 CDS pstA NC_007613.1 3673232 3674122 D high-affinity phosphate-specific transport system; Part of the ABC transporter complex PstABCS responsible for inorganic phosphate (Pi) uptake under Pi starvation conditions; phosphate transporter permease subunit PtsA 3673232..3674122 Shigella boydii Sb227 3782639 YP_409964.1 CDS pstB NC_007613.1 3674213 3674986 D ATP-binding protein; PstABCS is an ATP dependent phosphate uptake system which is responsible for inorganic phosphate uptake during phosphate starvation; phosphate transporter ATP-binding protein 3674213..3674986 Shigella boydii Sb227 3782640 YP_409965.1 CDS phoU NC_007613.1 3675001 3675726 D negative regulator for pho regulon and enzyme in phosphate metabolism; regulates several genes involved in high affinity phosphate uptake; under conditions of high phosphate concentrations downregulates the PHO regulon; transcriptional regulator PhoU 3675001..3675726 Shigella boydii Sb227 3782641 YP_409966.1 CDS SBO_3659 NC_007613.1 3675754 3675924 R IS1 encoded protein complement(3675754..3675924) Shigella boydii Sb227 3782642 YP_409967.1 CDS insB NC_007613.1 3676017 3676520 D Code: L; COG: COG1662; IS1 ORF2 3676017..3676520 Shigella boydii Sb227 3782643 YP_409968.1 CDS yieG NC_007613.1 3676548 3677885 D Code: R; COG: COG2252; membrane/transport protein 3676548..3677885 Shigella boydii Sb227 3782644 YP_409969.1 CDS yieF NC_007613.1 3677939 3678505 R Code: R; COG: COG0431; hypothetical protein complement(3677939..3678505) Shigella boydii Sb227 3782645 YP_409970.1 CDS yieE NC_007613.1 3678527 3679288 R Code: H; COG: COG2091; hypothetical protein complement(3678527..3679288) Shigella boydii Sb227 3782646 YP_409971.1 CDS yidZ NC_007613.1 3679433 3680392 R Involved in anaerobic NO protection; DNA-binding transcriptional regulator YidZ complement(3679433..3680392) Shigella boydii Sb227 3782647 YP_409972.1 CDS yidY NC_007613.1 3680367 3681542 R Confers resistance to chloramphenicol; multidrug efflux system protein MdtL complement(3680367..3681542) Shigella boydii Sb227 3782648 YP_409973.1 CDS tnaB NC_007613.1 3681674 3682921 R tryptophan transporter of low affinity; tryptophan permease TnaB complement(3681674..3682921) Shigella boydii Sb227 3782649 YP_409974.1 CDS insB NC_007613.1 3683681 3684184 R Code: L; COG: COG1662; IS1 ORF2 complement(3683681..3684184) Shigella boydii Sb227 3782651 YP_409975.1 CDS SBO_3669 NC_007613.1 3684277 3684450 D IS1 encoded protein 3684277..3684450 Shigella boydii Sb227 3782652 YP_409976.1 CDS trmE NC_007613.1 3684730 3686094 R GTP-binding protein in thiophene and furan oxidation; in Escherichia coli this protein is involved in the biosynthesis of the hypermodified nucleoside 5-methylaminomethyl-2-thiouridine, which is found in the wobble position of some tRNAs and affects ribosomal frameshifting; shows potassium-dependent dimerization and GTP hydrolysis; also involved in regulation of glutamate-dependent acid resistance and activation of gadE; tRNA modification GTPase TrmE complement(3684730..3686094) Shigella boydii Sb227 3782653 YP_409977.1 CDS yidC NC_007613.1 3686200 3687846 R functions to insert inner membrane proteins into the IM in Escherichia coli; interacts with transmembrane segments; functions in both Sec-dependent and -independent membrane insertion; similar to Oxa1p in mitochondria; inner membrane protein translocase component YidC complement(3686200..3687846) Shigella boydii Sb227 3782654 YP_409978.1 CDS yidD NC_007613.1 3687849 3688106 R Code: S; COG: COG0759; hypothetical protein complement(3687849..3688106) Shigella boydii Sb227 3782655 YP_409979.1 CDS rnpA NC_007613.1 3688070 3688429 R RNase P, protein component; protein C5; processes tRNA, 4.5S RNA; protein component of RNaseP which catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'terminus; this enzyme also cleaves other RNA substrates; ribonuclease P complement(3688070..3688429) Shigella boydii Sb227 3782656 YP_409980.1 CDS rpmH NC_007613.1 3688446 3688586 R in Escherichia coli transcription of this gene is enhanced by polyamines; 50S ribosomal protein L34 complement(3688446..3688586) Shigella boydii Sb227 3782657 YP_409981.1 CDS dnaA NC_007613.1 3689193 3690596 D DNA biosynthesis; initiation of chromosome replication; can be transcription regulator; binds to the dnaA-box as an ATP-bound complex at the origin of replication during the initiation of chromosomal replication; can also affect transcription of multiple genes including itself; chromosomal replication initiation protein 3689193..3690596 Shigella boydii Sb227 3782658 YP_409982.1 CDS dnaN NC_007613.1 3690601 3691701 D binds the polymerase to DNA and acts as a sliding clamp; DNA polymerase III subunit beta 3690601..3691701 Shigella boydii Sb227 3782659 YP_409983.1 CDS recF NC_007613.1 3691701 3692774 D ssDNA and dsDNA binding, ATP binding; Required for DNA replication; binds preferentially to single-stranded, linear DNA; recombination protein F 3691701..3692774 Shigella boydii Sb227 3782660 YP_409984.1 CDS gyrB NC_007613.1 3692803 3695217 D type II topoisomerase; ATPase activity; negatively supercoils closed circular double-stranded DNA; DNA gyrase subunit B 3692803..3695217 Shigella boydii Sb227 3782661 YP_409985.1 CDS yidB NC_007613.1 3695448 3695855 D Code: S; COG: COG3753; hypothetical protein 3695448..3695855 Shigella boydii Sb227 3782662 YP_409986.1 CDS SBO_3680 NC_007613.1 3695970 3696299 D hypothetical protein 3695970..3696299 Shigella boydii Sb227 3782663 YP_409987.1 CDS SBO_3681 NC_007613.1 3696417 3697646 R IS1294 transposase complement(3696417..3697646) Shigella boydii Sb227 3782664 YP_409988.1 CDS yidR NC_007613.1 3697957 3698970 D hypothetical protein 3697957..3698970 Shigella boydii Sb227 3782665 YP_409989.2 CDS yidQ NC_007613.1 3698972 3699304 R Code: R; COG: COG5645; hypothetical protein complement(3698972..3699304) Shigella boydii Sb227 3782666 YP_409990.1 CDS ibpA NC_007613.1 3699610 3700023 D with IbpB associates with aggregated proteins to stabilize and protect them from irreversible denaturation and extensive proteolysis during heat shock and oxidative stress; heat shock protein IbpA 3699610..3700023 Shigella boydii Sb227 3782667 YP_409991.2 CDS ibpB NC_007613.1 3700135 3700563 D 16 kDa heat shock protein B; associates with aggregated proteins, together with ibpA, to stabilize and protect them from irreversible denaturation and extensive proteolysis during heat shock and oxidative stress; ATP-independent; heat shock chaperone IbpB 3700135..3700563 Shigella boydii Sb227 3782668 YP_409992.2 CDS yidE NC_007613.1 3700759 3702420 D Code: R; COG: COG2985; hypothetical protein 3700759..3702420 Shigella boydii Sb227 3782669 YP_409993.1 CDS yidP NC_007613.1 3702417 3703133 R Code: K; COG: COG2188; transcriptional regulator complement(3702417..3703133) Shigella boydii Sb227 3782670 YP_409994.1 CDS glvC NC_007613.1 3703221 3705044 D Code: G; COG: COG1263; phosphotransferase system IIBC component 3703221..3705044 Shigella boydii Sb227 3782671 YP_409995.1 CDS SBO_3691 NC_007613.1 3707750 3708025 D Code: L; COG: COG2963; IS629 ORF1 3707750..3708025 Shigella boydii Sb227 3782674 YP_409996.1 CDS SBO_3692 NC_007613.1 3708025 3708912 D Code: L; COG: COG2801; IS629 ORF2 3708025..3708912 Shigella boydii Sb227 3782675 YP_409997.1 CDS yidH NC_007613.1 3709615 3709962 D Code: S; COG: COG2149; hypothetical protein 3709615..3709962 Shigella boydii Sb227 3782676 YP_409998.1 CDS yidG NC_007613.1 3709952 3710314 D hypothetical protein 3709952..3710314 Shigella boydii Sb227 3782677 YP_409999.1 CDS yidF NC_007613.1 3710311 3710808 D Code: R; COG: COG0641; transcriptional regulator 3710311..3710808 Shigella boydii Sb227 3782678 YP_410000.1 CDS emrD NC_007613.1 3710816 3712006 R multidrug resistance; multidrug efflux protein involved in adaptation to low energy shock; multidrug resistance protein D complement(3710816..3712006) Shigella boydii Sb227 3782679 YP_410001.1 CDS ivbL NC_007613.1 3713073 3713171 D ilvB operon leader peptide 3713073..3713171 Shigella boydii Sb227 3782680 YP_410002.1 CDS ilvB NC_007613.1 3713277 3714965 D Code: EH; COG: COG0028; acetolactate synthase catalytic subunit 3713277..3714965 Shigella boydii Sb227 3782681 YP_410003.1 CDS ilvN NC_007613.1 3714969 3715259 D with IlvB catalyzes the formation of 2-acetolactate from pyruvate, the small subunit is required for full activity and valine sensitivity; E.coli produces 3 isoenzymes of acetolactate synthase which differ in specificity to substrates, valine sensitivity and affinity for cofactors; also known as acetolactate synthase small subunit; acetolactate synthase 1 regulatory subunit 3714969..3715259 Shigella boydii Sb227 3782682 YP_410004.1 CDS uhpA NC_007613.1 3715333 3715923 D response regulator, positive activator of uhpT transcription (sensor, uhpB); response regulator in two-component regulatory system wtih UhpB; phosphorylated UhpA is a positive activator uhpT, a hexose phosphates transporter; DNA-binding transcriptional activator UhpA 3715333..3715923 Shigella boydii Sb227 3782683 YP_410005.1 CDS uhpB NC_007613.1 3715920 3717425 D sensor histidine protein kinase phosphorylates UhpA; Member of the two-component regulatory system UhpB/UhpA involved in the regulation of the uptake of hexose ph; sensory histidine kinase UhpB 3715920..3717425 Shigella boydii Sb227 3782684 YP_410006.1 CDS uhpC NC_007613.1 3717432 3718754 D membrane protein regulates uhpT expression; regulatory protein UhpC 3717432..3718754 Shigella boydii Sb227 3782685 YP_410007.1 CDS uhpT NC_007613.1 3718892 3720283 D cytoplasmic membrane protein that functions as a monomer; catalyzes the active transport of sugar-phosphates such as glucose-6-phosphate with the obligatory exchange of inorganic phosphate or organophosphate; sugar phosphate antiporter 3718892..3720283 Shigella boydii Sb227 3782686 YP_410008.1 CDS yicP NC_007613.1 3720328 3722094 R synthesis of xanthine; catalyzes the formation of hypoxanthine from adenine; in E. coli this activity has been detected in mutant strains but not in wild type; cryptic adenine deaminase complement(3720328..3722094) Shigella boydii Sb227 3782687 YP_410009.1 CDS insB NC_007613.1 3722710 3723213 R Code: L; COG: COG1662; IS1 ORF2 complement(3722710..3723213) Shigella boydii Sb227 3782689 YP_410010.1 CDS SBO_3707 NC_007613.1 3723306 3723560 D IS1 encoded protein 3723306..3723560 Shigella boydii Sb227 3782690 YP_410011.1 CDS yicN NC_007613.1 3724407 3724886 D hypothetical protein 3724407..3724886 Shigella boydii Sb227 3782691 YP_410012.2 CDS nepI NC_007613.1 3725097 3726287 D experimental results in Escherichia coli suggest that this gene encodes an inosine export protein; member of major facilitator superfamily; MFS; ribonucleoside transporter 3725097..3726287 Shigella boydii Sb227 3782692 YP_410013.1 CDS SBO_3710 NC_007613.1 3726328 3726621 R transporter complement(3726328..3726621) Shigella boydii Sb227 3782693 YP_410014.1 CDS nlpA NC_007613.1 3726843 3727661 D Code: P; COG: COG1464; hypothetical protein 3726843..3727661 Shigella boydii Sb227 3782694 YP_410015.1 CDS yicL NC_007613.1 3727688 3728587 R Code: GER; COG: COG0697; permease transporter complement(3727688..3728587) Shigella boydii Sb227 3782695 YP_410016.1 CDS SBO_3713 NC_007613.1 3728974 3729276 D Code: L; COG: COG2963; IS600 ORF1 3728974..3729276 Shigella boydii Sb227 3782696 YP_410017.1 CDS SBO_3714 NC_007613.1 3729312 3729650 D IS600 ORF2 3729312..3729650 Shigella boydii Sb227 3782697 YP_410018.1 CDS SBO_3715 NC_007613.1 3729756 3730130 D IS600 ORF2 3729756..3730130 Shigella boydii Sb227 3782698 YP_410019.1 CDS SBO_3717 NC_007613.1 3731074 3731244 R IS1 encoded protein complement(3731074..3731244) Shigella boydii Sb227 3782700 YP_410020.1 CDS insB NC_007613.1 3731337 3731840 D Code: L; COG: COG1662; IS1 ORF2 3731337..3731840 Shigella boydii Sb227 3782701 YP_410021.2 CDS yicJ NC_007613.1 3732545 3733927 D may be involved in the transport of galactosides-pentoses-hexuronides; transporter 3732545..3733927 Shigella boydii Sb227 3782703 YP_410022.1 CDS yicI NC_007613.1 3733937 3736228 D catalyzes the transfer of alpha-xylosyl residue from alpha-xyloside to xylose, glucose, mannose, fructose, maltose, isomaltose, nigerose, kojibiose, sucrose, and trehalose; shows higher activity against alpha-xylosyl fluoride, isoprimeverose (6-O-alpha-xylopyranosyl-glucopyranose), and alpha-xyloside in xyloglucan oligosaccharides; alpha-xylosidase 3733937..3736228 Shigella boydii Sb227 3782704 YP_410023.1 CDS yicH NC_007613.1 3736281 3737990 R hypothetical protein complement(3736281..3737990) Shigella boydii Sb227 3782705 YP_410024.1 CDS yicE NC_007613.1 3738111 3739502 R Code: F; COG: COG2233; transporter complement(3738111..3739502) Shigella boydii Sb227 3782706 YP_410025.1 CDS gltS NC_007613.1 3739782 3740987 D Code: E; COG: COG0786; glutamate transport 3739782..3740987 Shigella boydii Sb227 3782707 YP_410026.1 CDS recG NC_007613.1 3741021 3743102 R resolution of Holliday junctions; branch migration; catalyzes branch migration in Holliday junction intermediates; ATP-dependent DNA helicase RecG complement(3741021..3743102) Shigella boydii Sb227 3782708 YP_410027.1 CDS spoU NC_007613.1 3743108 3743797 R specifically modifies tRNA at position G18; tRNA guanosine-2'-O-methyltransferase complement(3743108..3743797) Shigella boydii Sb227 3782709 YP_410028.1 CDS spoT NC_007613.1 3743804 3745912 R also guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Code: TK; COG: COG0317; bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase complement(3743804..3745912) Shigella boydii Sb227 3782710 YP_410029.1 CDS rpoZ NC_007613.1 3745931 3746206 R promotes RNA polymerase assembly or stability; latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits; DNA-directed RNA polymerase subunit omega complement(3745931..3746206) Shigella boydii Sb227 3782711 YP_410030.1 CDS gmk NC_007613.1 3746261 3746884 R Essential for recycling GMP and indirectly, cGMP; guanylate kinase complement(3746261..3746884) Shigella boydii Sb227 3782712 YP_410031.1 CDS SBO_3731 NC_007613.1 3748505 3748780 D Code: L; COG: COG2963; IS629 ORF1 3748505..3748780 Shigella boydii Sb227 3782714 YP_410032.1 CDS SBO_3732 NC_007613.1 3748780 3749667 D Code: L; COG: COG2801; IS629 ORF2 3748780..3749667 Shigella boydii Sb227 3782715 YP_410033.1 CDS yicG NC_007613.1 3750134 3750805 R Code: S; COG: COG2860; hypothetical protein complement(3750134..3750805) Shigella boydii Sb227 3782716 YP_410034.2 CDS dinD NC_007613.1 3751043 3751867 R DNA-damage-inducible protein D complement(3751043..3751867) Shigella boydii Sb227 3782717 YP_410035.1 CDS SBO_3735 NC_007613.1 3752301 3752660 D hypothetical protein 3752301..3752660 Shigella boydii Sb227 3782718 YP_410036.1 CDS SBO_3736 NC_007613.1 3752653 3753195 R hypothetical protein complement(3752653..3753195) Shigella boydii Sb227 3782719 YP_410037.1 CDS SBO_3737 NC_007613.1 3753733 3754344 R hypothetical protein complement(3753733..3754344) Shigella boydii Sb227 3782720 YP_410038.1 CDS SBO_3738 NC_007613.1 3755385 3756026 R hypothetical protein complement(3755385..3756026) Shigella boydii Sb227 3782721 YP_410039.1 CDS SBO_3739 NC_007613.1 3756037 3756471 R Code: L; COG: COG0629; single stranded DNA-binding protein complement(3756037..3756471) Shigella boydii Sb227 3782722 YP_410040.1 CDS SBO_3740 NC_007613.1 3757254 3758600 D Code: L; COG: COG3385; IS4 orf 3757254..3758600 Shigella boydii Sb227 3782723 YP_410041.2 CDS yieN NC_007613.1 3758703 3760199 D interacts with LdcI, lysine decarboxylase; may be active in late log/ early stationary phase; regulatory ATPase RavA 3758703..3760199 Shigella boydii Sb227 3782724 YP_410042.2 CDS yieM NC_007613.1 3760193 3761644 D contains a von Willibrand factor type A domain; stimulates the ATPase activity of RavA; hypothetical protein 3760193..3761644 Shigella boydii Sb227 3782725 YP_410043.1 CDS asnA NC_007613.1 3761649 3762641 R catalyzes the formation of asparagine from aspartate and ammonia; asparagine synthetase AsnA complement(3761649..3762641) Shigella boydii Sb227 3782726 YP_410044.1 CDS asnC NC_007613.1 3762793 3763251 D regulator for asnA, asnC and gidA; transcriptional repressor of asnA which codes for aspartate-ammonia ligase; DNA-binding transcriptional regulator AsnC 3762793..3763251 Shigella boydii Sb227 3782727 YP_410045.1 CDS mioC NC_007613.1 3763341 3763784 D An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic group; flavodoxin 3763341..3763784 Shigella boydii Sb227 3782728 YP_410046.1 CDS gidA NC_007613.1 3764163 3766052 D glucose-inhibited division; possible role in chromosome replication; GidA; glucose-inhibited cell division protein A; involved in the 5-carboxymethylaminomethyl modification (mnm(5)s(2)U) of the wobble uridine base in some tRNAs; tRNA uridine 5-carboxymethylaminomethyl modification protein GidA 3764163..3766052 Shigella boydii Sb227 3782729 YP_410047.1 CDS gidB NC_007613.1 3766116 3766739 D glucose-inhibited division; possible role in chromosome replication; glucose-inhibited division protein B; SAM-dependent methyltransferase; methylates the N7 position of guanosine in position 527 of 16S rRNA; 16S rRNA methyltransferase GidB 3766116..3766739 Shigella boydii Sb227 3782730 YP_410048.1 CDS atpI NC_007613.1 3767356 3767736 D membrane-bound ATP synthase, dispensable protein, affects expression of atpB; Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit I associates with the membrane and may be involved with cation translocation; F0F1 ATP synthase subunit I 3767356..3767736 Shigella boydii Sb227 3782731 YP_410049.1 CDS atpE NC_007613.1 3768606 3768845 D Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit C is part of the membrane proton channel F0; F0F1 ATP synthase subunit C 3768606..3768845 Shigella boydii Sb227 3782733 YP_410050.1 CDS atpF NC_007613.1 3768907 3769377 D Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B is part of the membrane proton channel.; F0F1 ATP synthase subunit B 3768907..3769377 Shigella boydii Sb227 3782734 YP_410051.1 CDS atpH NC_007613.1 3769392 3769925 D Produces ATP from ADP in the presence of a proton gradient across the membrane; the delta subunit is part of the catalytic core of the ATP synthase complex; F0F1 ATP synthase subunit delta 3769392..3769925 Shigella boydii Sb227 3782735 YP_410052.1 CDS atpA NC_007613.1 3769938 3771479 D produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit; F0F1 ATP synthase subunit alpha 3769938..3771479 Shigella boydii Sb227 3782736 YP_410053.1 CDS atpG NC_007613.1 3771530 3772393 D Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit; F0F1 ATP synthase subunit gamma 3771530..3772393 Shigella boydii Sb227 3782737 YP_410054.1 CDS atpD NC_007613.1 3772420 3773802 D Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit; F0F1 ATP synthase subunit beta 3772420..3773802 Shigella boydii Sb227 3782738 YP_410055.1 CDS atpC NC_007613.1 3773823 3774242 D part of catalytic core of ATP synthase; alpha(3)beta(3)gamma(1)delta(1)epsilon(1); involved in producing ATP from ADP in the presence of the proton motive force across the membrane; F0F1 ATP synthase subunit epsilon 3773823..3774242 Shigella boydii Sb227 3782739 YP_410056.1 CDS glmU NC_007613.1 3774593 3775963 D forms a homotrimer; catalyzes the acetylation of glucosamine-1-phosphate and uridylation of N-acetylglucosamine-1-phosphate to produce UDP-GlcNAc; function in cell wall synthesis; bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase 3774593..3775963 Shigella boydii Sb227 3782740 YP_410057.1 CDS glmS NC_007613.1 3776125 3777954 D Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source; glucosamine--fructose-6-phosphate aminotransferase 3776125..3777954 Shigella boydii Sb227 3782741 YP_410058.1 CDS SBO_3759 NC_007613.1 3778004 3778642 R IS4 orf complement(3778004..3778642) Shigella boydii Sb227 3782742 YP_410059.1 CDS SBO_3760 NC_007613.1 3778761 3779351 R IS4 orf complement(3778761..3779351) Shigella boydii Sb227 3782743 YP_410060.1 CDS trkD NC_007613.1 3779562 3781430 D Responsible for the low-affinity transport of potassium into the cell; involved in potassium ion uptake under hyper-osmotic stress at a low pH; potassium transport protein Kup 3779562..3781430 Shigella boydii Sb227 3782744 YP_410061.1 CDS rbsD NC_007613.1 3781597 3782016 D cytoplasmic mutarotase that catalyzes the conversion between beta-pyran and beta-furan forms of D-ribose; RbsD is required for efficient ribose utilization in E. coli; rbsD-mutant E. coli strains are unable to use ribose as a sole carbon source; D-ribose pyranase 3781597..3782016 Shigella boydii Sb227 3782745 YP_410062.1 CDS rbsC NC_007613.1 3783498 3784463 D functions to transport ribose at high affinity; forms a complex with RbsA2C2B; ribose ABC transporter permease 3783498..3784463 Shigella boydii Sb227 3782747 YP_410063.1 CDS rbsK NC_007613.1 3785500 3786429 D catalyzes the formation of D-ribose 5-phosphate from ribose; ribokinase 3785500..3786429 Shigella boydii Sb227 3782749 YP_410064.1 CDS rbsR NC_007613.1 3786433 3787425 D DNA-binding transcriptional repressor of ribose metabolism; transcriptional repressor RbsR 3786433..3787425 Shigella boydii Sb227 3782750 YP_410065.1 CDS yieO NC_007613.1 3787391 3788818 R Code: GEPR; COG: COG0477; transporter complement(3787391..3788818) Shigella boydii Sb227 3782751 YP_410066.1 CDS yifDA NC_007613.1 3795336 3796175 R Negatively regulates the transcription of the flagellar master operon flhDC by binding to the upstream region of the operon; transcriptional regulator HdfR complement(3795336..3796175) Shigella boydii Sb227 3782758 YP_410067.1 CDS yifE NC_007613.1 3796294 3796632 D Code: S; COG: COG3085; hypothetical protein 3796294..3796632 Shigella boydii Sb227 3782759 YP_410068.1 CDS yifB NC_007613.1 3796795 3798207 R Code: O; COG: COG0606; 2-component regulator complement(3796795..3798207) Shigella boydii Sb227 3782760 YP_410069.1 CDS ilvL NC_007613.1 3798529 3798627 D ilvG operon leader peptide 3798529..3798627 Shigella boydii Sb227 3782761 YP_410070.1 CDS ilvG NC_007613.1 3798767 3800413 D catalyzes the formation of 2-acetolactate from pyruvate; also known as acetolactate synthase large subunit; acetolactate synthase 2 catalytic subunit 3798767..3800413 Shigella boydii Sb227 3782762 YP_410071.1 CDS ilvM NC_007613.1 3800410 3800673 D Code: S; COG: COG3978; acetolactate synthase 2 regulatory subunit 3800410..3800673 Shigella boydii Sb227 3782763 YP_410072.1 CDS ilvE NC_007613.1 3800693 3801622 D catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids; branched-chain amino acid aminotransferase 3800693..3801622 Shigella boydii Sb227 3782764 YP_410073.1 CDS ilvD NC_007613.1 3801687 3803537 D catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis; dihydroxy-acid dehydratase 3801687..3803537 Shigella boydii Sb227 3782765 YP_410074.1 CDS ilvA NC_007613.1 3803540 3805084 D dehydratase; threonine deaminase; threonine dehydratase; in Escherichia coli, IlvA is part of the isoleucine biosynthetic pathway; threonine dehydratase 3803540..3805084 Shigella boydii Sb227 3782766 YP_410075.1 CDS ilvY NC_007613.1 3805081 3805971 R participates in controlling several genes involved in isoleucine and valine biosynthesis; activates the transcription of the ilvC gene in the presence of acetolactate or acetohydroxybutyrate; DNA-binding transcriptional regulator IlvY complement(3805081..3805971) Shigella boydii Sb227 3782767 YP_410076.1 CDS ilvC NC_007613.1 3806121 3807596 D catalyzes the formation of (R)-2,3-dihydroxy-3-methylbutanoate from (S)-2-hydroxy-2-methyl-3-oxobutanoate in valine and isoleucine biosynthesis; ketol-acid reductoisomerase 3806121..3807596 Shigella boydii Sb227 3782768 YP_410077.1 CDS ppiC NC_007613.1 3807683 3807964 R rotamase C; Code: O; COG: COG0760; peptidyl-prolyl cis-trans isomerase C complement(3807683..3807964) Shigella boydii Sb227 3782769 YP_410078.2 CDS SBO_3787 NC_007613.1 3808889 3809794 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 3808889..3809794 Shigella boydii Sb227 3782770 YP_410079.1 CDS rep NC_007613.1 3810165 3812186 D a single-stranded DNA dependent ATPase; single-stranded DNA-dependent ATPase; initiates unwinding at a nick in the DNA; involved in DNA replication; ATP-dependent DNA helicase Rep 3810165..3812186 Shigella boydii Sb227 3782771 YP_410080.1 CDS gppA NC_007613.1 3812233 3813717 R exopolyphosphatase; catalyzes the conversion of guanosine 5'-triphosphate,3'-diphosphate (pppGpp) to guanosine 5'-diphosphate,3'-diphosphate (ppGpp); pppGpp and ppGpp control the stringent response during amino acid starvation; guanosine pentaphosphate phosphohydrolase complement(3812233..3813717) Shigella boydii Sb227 3782772 YP_410081.1 CDS rhlB NC_007613.1 3813851 3815116 R enables ATP-dependent unwinding of double stranded RNA as a component of the RNA degradosome, a multi-enzyme complex important in RNA processing and messenger RNA degradation; ATP-dependent RNA helicase RhlB complement(3813851..3815116) Shigella boydii Sb227 3782773 YP_410082.1 CDS trxA NC_007613.1 3815193 3815576 D Code: OC; COG: COG0526; thioredoxin 3815193..3815576 Shigella boydii Sb227 3782774 YP_410083.1 CDS rhoL NC_007613.1 3815717 3815818 D rho operon leader peptide 3815717..3815818 Shigella boydii Sb227 3782775 YP_410084.1 CDS rho NC_007613.1 3815903 3817162 D polarity suppressor; An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes; transcription termination factor Rho 3815903..3817162 Shigella boydii Sb227 3782776 YP_410085.1 CDS SBO_3794 NC_007613.1 3817172 3817390 D hypothetical protein 3817172..3817390 Shigella boydii Sb227 3782777 YP_410086.1 CDS rfe NC_007613.1 3817402 3818505 D synthesis of enterobacterial common antigen (ECA); Code: M; COG: COG0472; UDP-GlcNAc:undecaprenylphosphate GlcNAc-1-phosphate transferase 3817402..3818505 Shigella boydii Sb227 3782778 YP_410087.1 CDS wzzE NC_007613.1 3818514 3819563 D Enterobacterial Common Antigen (ECA) polysaccharide chain length modulation protein; lipopolysaccharide biosynthesis protein WzzE 3818514..3819563 Shigella boydii Sb227 3782779 YP_410088.1 CDS wecB NC_007613.1 3819664 3820749 D synthesis of enterobacterial common antigen (ECA); Code: M; COG: COG0381; UDP-N-acetyl glucosamine-2-epimerase 3819664..3820749 Shigella boydii Sb227 3782780 YP_410089.1 CDS wecC NC_007613.1 3820746 3822008 D synthesis of enterobacterial common antigen (ECA); catalyzes the oxidation of UDP-N-acetyl-D-mannosamine to UDP-N-acetylmannosaminuronic acid; UDP-N-acetyl-D-mannosamine dehydrogenase 3820746..3822008 Shigella boydii Sb227 3782781 YP_410090.1 CDS rffG NC_007613.1 3822008 3823075 D Code: M; COG: COG1088; dTDP-glucose 4,6-dehydratase 3822008..3823075 Shigella boydii Sb227 3782782 YP_410091.1 CDS rffH NC_007613.1 3823094 3823975 D Code: M; COG: COG1209; glucose-1-phosphate thymidylyltransferase 3823094..3823975 Shigella boydii Sb227 3782783 YP_410092.1 CDS wecD NC_007613.1 3824082 3824627 D Code: KR; COG: COG0454; TDP-fucosamine acetyltransferase 3824082..3824627 Shigella boydii Sb227 3782784 YP_410093.1 CDS wecE NC_007613.1 3824632 3825762 D catalyzes the formation of dTDP-D-fucosamine from dTDP-4-oxo-6-deoxy-D-glucose in enterobacterial common antigen biosynthesis; TDP-4-oxo-6-deoxy-D-glucose transaminase 3824632..3825762 Shigella boydii Sb227 3782785 YP_410094.1 CDS wzxE NC_007613.1 3825764 3827014 D Code: R; COG: COG2244; cytochrome 3825764..3827014 Shigella boydii Sb227 3782786 YP_410095.1 CDS yifM NC_007613.1 3827011 3828090 D catalyzes the synthesis of a lipid-linked intermediate involved in ECA synthesis; 4-alpha-L-fucosyltransferase 3827011..3828090 Shigella boydii Sb227 3782787 YP_410096.1 CDS wecF NC_007613.1 3828087 3829439 D synthesis of enterobacterial common antigen (ECA); enterobacterial common antigen polymerase; common antigen polymerase 3828087..3829439 Shigella boydii Sb227 3782788 YP_410097.1 CDS wecG NC_007613.1 3829442 3830182 D synthesis of enterobacterial common antigen (ECA); Code: M; COG: COG1922; UDP-N-acetyl-D-mannosaminuronic acid transferase 3829442..3830182 Shigella boydii Sb227 3782789 YP_410098.1 CDS yifK NC_007613.1 3830373 3831758 D uncharacterized member of the amino acid-polyamine-organocation (APC) superfamily of amino acid transporters; unknown function; transporter 3830373..3831758 Shigella boydii Sb227 3782790 YP_410099.1 CDS aslB NC_007613.1 3832444 3833679 D Code: R; COG: COG0641; arylsulfatase regulator 3832444..3833679 Shigella boydii Sb227 3782795 YP_410100.1 CDS hemY NC_007613.1 3834603 3835799 R a late step of protoheme IX synthesis; Code: H; COG: COG3071; protoheme IX biogenesis protein complement(3834603..3835799) Shigella boydii Sb227 3782796 YP_410101.1 CDS hemX NC_007613.1 3835802 3837025 R Code: H; COG: COG2959; uroporphyrinogen III C-methyltransferase complement(3835802..3837025) Shigella boydii Sb227 3782797 YP_410102.1 CDS hemD NC_007613.1 3837047 3837787 R catalyzes the formation of uroporphyrinogen-III from hydroxymethylbilane; functions in tetrapyrrole and heme biosynthesis; uroporphyrinogen-III synthase complement(3837047..3837787) Shigella boydii Sb227 3782798 YP_410103.1 CDS hemC NC_007613.1 3837784 3838746 R hydroxymethylbilane synthase; transformation of porphobilinogen to hydroxymethylbilane in porphyrin biosynthesis; porphobilinogen deaminase complement(3837784..3838746) Shigella boydii Sb227 3782799 YP_410104.1 CDS cyaA NC_007613.1 3839112 3841658 D catalyzes transfer of adenylyl group of ATP from pyrophosphate to the 3'-hydroxyl group to form cyclic AMP; adenylate cyclase 3839112..3841658 Shigella boydii Sb227 3782800 YP_410105.1 CDS cyaY NC_007613.1 3841698 3842018 R defects in the mitochondrial frataxin protein cause Friedreich ataxis which is an autosomal recessive neurodegenerative disease; based on phylogenomic distribution this protein may have a role in iron-sulfur cluster protein assembly; frataxin-like protein complement(3841698..3842018) Shigella boydii Sb227 3782802 YP_410106.1 CDS SBO_3818 NC_007613.1 3841809 3842294 D hypothetical protein 3841809..3842294 Shigella boydii Sb227 3782801 YP_410107.2 CDS dapF NC_007613.1 3842720 3843544 D involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate; diaminopimelate epimerase 3842720..3843544 Shigella boydii Sb227 3782803 YP_410108.1 CDS yigA NC_007613.1 3843541 3844248 D Code: S; COG: COG3159; hypothetical protein 3843541..3844248 Shigella boydii Sb227 3782804 YP_410109.1 CDS xerC NC_007613.1 3844245 3845141 D acts on cer sequence of ColE1, effects chromosome segregation at cell division; site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; forms a heterotetrameric complex with XerC; XerCD exhibit similar sequences; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs; site-specific tyrosine recombinase XerC 3844245..3845141 Shigella boydii Sb227 3782805 YP_410110.1 CDS yigB NC_007613.1 3845141 3845857 D YigB; member of the haloacid dehalogenase (HAD)-like hydrolases superfamily of protein; unknown function; flavin mononucleotide phosphatase 3845141..3845857 Shigella boydii Sb227 3782806 YP_410111.1 CDS uvrD NC_007613.1 3845941 3848103 D unwinds DNA duplexes with 3' to 5' polarity with respect to the bound strand and initiates unwinding most effectively when a single-stranded region is present; involved in the post-incision events of nucleotide excision repair and methyl-directed mismatch repair.; DNA-dependent helicase II 3845941..3848103 Shigella boydii Sb227 3782807 YP_410112.1 CDS SBO_3825 NC_007613.1 3848148 3849050 R Code: S; COG: COG1912; hypothetical protein complement(3848148..3849050) Shigella boydii Sb227 3782808 YP_410113.1 CDS SBO_3826 NC_007613.1 3849587 3850225 R IS4 orf complement(3849587..3850225) Shigella boydii Sb227 3782809 YP_410114.1 CDS SBO_3827 NC_007613.1 3850344 3850934 R IS4 orf complement(3850344..3850934) Shigella boydii Sb227 3782810 YP_410115.1 CDS corA NC_007613.1 3851706 3852656 D Mg2+ transport, system I; responsible for the influx of magnesium ions; magnesium/nickel/cobalt transporter CorA 3851706..3852656 Shigella boydii Sb227 3782812 YP_410116.1 CDS insB NC_007613.1 3852910 3853413 D Code: L; COG: COG1662; IS1 ORF2 3852910..3853413 Shigella boydii Sb227 3782813 YP_410117.1 CDS rarD NC_007613.1 3853407 3854312 R Code: R; COG: COG2962; hypothetical protein complement(3853407..3854312) Shigella boydii Sb227 3782814 YP_410118.2 CDS yigI NC_007613.1 3854364 3854825 R Code: Q; COG: COG2050; hypothetical protein complement(3854364..3854825) Shigella boydii Sb227 3782815 YP_410119.1 CDS pldA NC_007613.1 3854990 3855859 D catalyzes the hydrolysis of phosphatidylcholine; phospholipase A 3854990..3855859 Shigella boydii Sb227 3782816 YP_410120.1 CDS recQ NC_007613.1 3855986 3857821 D functions in blocking illegitimate recombination, enhancing topoisomerase activity, initiating SOS signaling and clearing blocked replication forks; component of the RecF recombinational pathway; ATP-dependent DNA helicase RecQ 3855986..3857821 Shigella boydii Sb227 3782817 YP_410121.1 CDS yigJ NC_007613.1 3858137 3858505 D Code: E; COG: COG1280; hypothetical protein 3858137..3858505 Shigella boydii Sb227 3782818 YP_410122.1 CDS yigK NC_007613.1 3858567 3858983 R Code: E; COG: COG1280; hypothetical protein complement(3858567..3858983) Shigella boydii Sb227 3782819 YP_410123.1 CDS pldB NC_007613.1 3859298 3860320 D lecithinase B; catalyzes the conversion of 1-lysophosphatidylcholine to glycerophosphocholine; can also hydrolyze 2-acyl glycerophosphoethanolamine and other substrates; lysophospholipase L2 3859298..3860320 Shigella boydii Sb227 3782820 YP_410124.1 CDS yigL NC_007613.1 3860328 3861128 D Predicted hydrolase (HAD superfamily); purine and pyrimidine nucleotides are secondary substrates; yigL expression is regulated by heat shock, osmotic shock and starvation of glucose, phosphate or ammonium; sugar phosphatase 3860328..3861128 Shigella boydii Sb227 3782821 YP_410125.1 CDS yigM NC_007613.1 3861204 3862103 D Code: GER; COG: COG0697; hypothetical protein 3861204..3862103 Shigella boydii Sb227 3782822 YP_410126.1 CDS metR NC_007613.1 3861991 3862944 R regulator for metE and metH; Code: K; COG: COG0583; protein MetR complement(3861991..3862944) Shigella boydii Sb227 3782823 YP_410127.1 CDS metE NC_007613.1 3863180 3865441 D catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine to form methionine; 5- methyltetrahydropteroyltriglutamate/homocysteine S-methyltransferase 3863180..3865441 Shigella boydii Sb227 3782824 YP_410128.1 CDS SBO_3842 NC_007613.1 3866449 3866724 D Code: L; COG: COG2963; IS629 ORF1 3866449..3866724 Shigella boydii Sb227 3782825 YP_410129.1 CDS SBO_3843 NC_007613.1 3866724 3867611 D Code: L; COG: COG2801; IS629 ORF2 3866724..3867611 Shigella boydii Sb227 3782826 YP_410130.1 CDS SBO_3844 NC_007613.1 3868793 3869671 R Code: Q; COG: COG0412; hypothetical protein complement(3868793..3869671) Shigella boydii Sb227 3782827 YP_410131.1 CDS udp NC_007613.1 3869867 3870628 D catalyzes the reversible phosphorylytic cleavage of uridine and deoxyuridine to uracil and ribose- or deoxyribose-1-phosphate; involved in the pyrimidine salvage pathway; uridine phosphorylase 3869867..3870628 Shigella boydii Sb227 3782828 YP_410132.1 CDS yigN NC_007613.1 3870769 3872196 D YigN; nuclease that may cleave DNA structures arising during the recombination of short-inverted repeats and thereby prevents the inversion of the internal sequence; transcription is induced by DNA-damaging agents such as nalidixic acid or mitomycin C in a LexA-dependent manner; DNA recombination protein RmuC 3870769..3872196 Shigella boydii Sb227 3782829 YP_410133.1 CDS ubiE NC_007613.1 3872291 3873046 D 2-octaprenyl-6-methoxy-1,4-benzoquinone --> 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinone; Catalyzes the carbon methylation reaction in the biosynthesis of ubiquinone; ubiquinone/menaquinone biosynthesis methyltransferase 3872291..3873046 Shigella boydii Sb227 3782830 YP_410134.1 CDS yigP NC_007613.1 3873060 3873665 D Code: S; COG: COG3165; hypothetical protein 3873060..3873665 Shigella boydii Sb227 3782831 YP_410135.1 CDS ubiB NC_007613.1 3873662 3875302 D an Escherichia coli mutant results in accumulation of octaprenylphenol and no ubiquinone; functions in the formation of 2-octaprenyl-6-hydroxy-phenol from 2-octaprenylphenol in ubiquinone (coenzyme Q) biosynthesis; similar to eukaryotic proteins that exhibit kinase functions; ubiquinone biosynthesis protein UbiB 3873662..3875302 Shigella boydii Sb227 3782832 YP_410136.1 CDS tatA NC_007613.1 3875339 3875650 D TatA; similar to TatE that is found in some proteobacteria; part of system that translocates proteins with a conserved twin arginine motif across the inner membrane; capable of translocating folded substrates typically those with bound cofactors; similar to a protein import system in thylakoid membranes; twin arginine translocase protein A 3875339..3875650 Shigella boydii Sb227 3782833 YP_410137.2 CDS SBO_3851 NC_007613.1 3875654 3876169 D mediates the export of protein precursors bearing twin-arginine signal peptides; sec-independent translocase 3875654..3876169 Shigella boydii Sb227 3782834 YP_410138.1 CDS yigU NC_007613.1 3876172 3876948 D with TatABE forms the twin-arginine translocation complex which is involved in the transport of proteins across the cytoplasmic membrane; twin-arginine protein translocation system subunit TatC 3876172..3876948 Shigella boydii Sb227 3782835 YP_410139.1 CDS tatD NC_007613.1 3876978 3877772 D magnesium dependent; not involved in the Sec-independent protein export system; DNase TatD 3876978..3877772 Shigella boydii Sb227 3782836 YP_410140.1 CDS rfaH NC_007613.1 3877769 3878257 R transcriptional activator affecting biosynthesis of lipopolysaccharide core, F pilin, and hemolysin; Code: K; COG: COG0250; transcriptional activator RfaH complement(3877769..3878257) Shigella boydii Sb227 3782837 YP_410141.1 CDS yigC NC_007613.1 3878424 3879917 D catalyzes the decarboxylation of 3-octaprenyl-4-hydroxy benzoate to 2-octaprenylphenol; 3-octaprenyl-4-hydroxybenzoate carboxy-lyase 3878424..3879917 Shigella boydii Sb227 3782838 YP_410142.1 CDS fre NC_007613.1 3879963 3880664 D flavin reductase (NADPH:flavin oxidoreductase); NAD(P)H-flavin reductase; catalyzes the reversible oxidation/reduction of NAD(P) and flavine mononucleotide; in Salmonella and E. coli this protein also reduces aquacob(III)alamin to cob(II)alamin; FMN reductase 3879963..3880664 Shigella boydii Sb227 3782839 YP_410143.1 CDS fadA NC_007613.1 3880856 3882019 R 3-ketoacyl-CoA thiolase; acetyl-CoA transferase; FadA; fatty acid oxidation complex component beta; functions in a heterotetramer with FadB; similar to FadI2J2 complex; functions in beta-oxidation of fatty acids; 3-ketoacyl-CoA thiolase complement(3880856..3882019) Shigella boydii Sb227 3782840 YP_410144.1 CDS pepQ NC_007613.1 3884436 3885767 D catalyzes the hydrolysis of dipeptides with a proline at the C-terminal; also catalyzes the low efficiency hydrolysis of organophosphate di- and tri-esters; proline dipeptidase 3884436..3885767 Shigella boydii Sb227 3782842 YP_410145.1 CDS yigZ NC_007613.1 3885764 3886381 D Code: S; COG: COG1739; hypothetical protein 3885764..3886381 Shigella boydii Sb227 3782843 YP_410146.1 CDS trkH NC_007613.1 3886420 3887871 D potassium uptake, requires TrkE; Code: P; COG: COG0168; potassium transporter 3886420..3887871 Shigella boydii Sb227 3782844 YP_410147.1 CDS hemG NC_007613.1 3887883 3888428 D catalyzes the oxidation of protoporphyrinogen IX to form protoporphyrin IX; protoporphyrinogen oxidase 3887883..3888428 Shigella boydii Sb227 3782845 YP_410148.1 CDS mobB NC_007613.1 3894012 3894524 R in Escherichia coli the MobB protein is not essential but has been found to interact with multiple proteins involved in the molybdopterin guanine dinucleotide cofactor biosynthesis pathway; molybdopterin-guanine dinucleotide biosynthesis protein MobB complement(3894012..3894524) Shigella boydii Sb227 3782851 YP_410149.1 CDS mobA NC_007613.1 3894521 3895105 R molybdopterin ---> molybdopterin-guanine dinucleotide, protein Ar; in Escherichia coli MobA links a guanosine 5'-phosphate to molydopterin to form molybdopterin guanine dinucleotide during molybdenum cofactor biosynthesis; molybdopterin-guanine dinucleotide biosynthesis protein MobA complement(3894521..3895105) Shigella boydii Sb227 3782852 YP_410150.1 CDS yihD NC_007613.1 3895175 3895444 D Code: S; COG: COG3084; hypothetical protein 3895175..3895444 Shigella boydii Sb227 3782853 YP_410151.1 CDS yihE NC_007613.1 3895521 3896507 D catalyzes the phosphorylation of protein substrates at serine and threonine residues in vitro; specific substrate in vivo has not been identified yet; plays a role in long-term cell survival and expression of surface appendages; serine/threonine protein kinase 3895521..3896507 Shigella boydii Sb227 3782854 YP_410152.1 CDS dsbA NC_007613.1 3896524 3897150 D essential for cytochrome c synthesis and formate-dependent reduction; Code: OC; COG: COG0526; protein disulfide isomerase I 3896524..3897150 Shigella boydii Sb227 3782855 YP_410153.1 CDS SBO_3874 NC_007613.1 3898685 3899524 D Code: L; COG: COG2801; IS911 ORF2 3898685..3899524 Shigella boydii Sb227 3782857 YP_410154.1 CDS yihG NC_007613.1 3900028 3900960 R Code: I; COG: COG0204; acyltransferase complement(3900028..3900960) Shigella boydii Sb227 3782858 YP_410155.1 CDS polA NC_007613.1 3901324 3904110 D 3' --> 5' polymerase, 5' --> 3' and 3' --> 5' exonuclease; has 3'-5' exonuclease, 5'-3' exonuclease and 5'-3'polymerase activities, primarily functions to fill gaps during DNA replication and repair; DNA polymerase I 3901324..3904110 Shigella boydii Sb227 3782859 YP_410156.2 CDS engB NC_007613.1 3904492 3905124 R binds guanine nucleotides; in Escherichia coli depletion results in defective cell division and filamentation; in Bacillus subtilis this gene is essential; ribosome biogenesis GTP-binding protein YsxC complement(3904492..3905124) Shigella boydii Sb227 3782860 YP_410157.1 CDS yihI NC_007613.1 3905706 3906215 D Code: S; COG: COG3078; hypothetical protein 3905706..3906215 Shigella boydii Sb227 3782861 YP_410158.2 CDS hemN NC_007613.1 3906405 3907778 D catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III; coproporphyrinogen III oxidase 3906405..3907778 Shigella boydii Sb227 3782862 YP_410159.1 CDS glnG NC_007613.1 3908189 3909598 R sensor glnL; nitrogen regulator I, NRI; response regulator of a two-component regulatory system involved in the activation of nitrogen assimilation genes; interacts with sigma-54; nitrogen regulation protein NR(I) complement(3908189..3909598) Shigella boydii Sb227 3782863 YP_410160.1 CDS glnL NC_007613.1 3909610 3910659 R nitrogen regulator II, NRII; sensory histidine kinase in two-component regulatory system with GlnG; acts as a signal transducer which responds to the nitrogen level of cell and modulates the activity of ntrC by phosphorylation/dephosphorylation; nitrogen regulation protein NR(II) complement(3909610..3910659) Shigella boydii Sb227 3782864 YP_410161.1 CDS glnA NC_007613.1 3910833 3912242 R forms a homododecamer; forms glutamine from ammonia and glutamate with the conversion of ATP to ADP and phosphate; also functions in the assimilation of ammonia; highly regulated protein controlled by the addition/removal of adenylyl groups by adenylyltransferase from specific tyrosine residues; addition of adenylyl groups results in inactivation of the enzyme; glutamine synthetase complement(3910833..3912242) Shigella boydii Sb227 3782865 YP_410162.1 CDS yihK NC_007613.1 3912615 3914438 D Code: T; COG: COG1217; GTP-binding protein 3912615..3914438 Shigella boydii Sb227 3782866 YP_410163.1 CDS SBO_3884 NC_007613.1 3914490 3915836 R Code: L; COG: COG3385; IS4 orf complement(3914490..3915836) Shigella boydii Sb227 3782867 YP_410164.1 CDS yihW NC_007613.1 3915982 3916770 R Code: KG; COG: COG1349; DEOR-type transcriptional regulator complement(3915982..3916770) Shigella boydii Sb227 3782868 YP_410165.1 CDS yihV NC_007613.1 3916810 3917706 R Code: G; COG: COG0524; kinase complement(3916810..3917706) Shigella boydii Sb227 3782869 YP_410166.1 CDS yihU NC_007613.1 3917879 3918757 D Code: I; COG: COG2084; dehydrogenase 3917879..3918757 Shigella boydii Sb227 3782870 YP_410167.1 CDS yihT NC_007613.1 3918782 3919666 D Code: G; COG: COG3684; aldolase 3918782..3919666 Shigella boydii Sb227 3782871 YP_410168.1 CDS insB NC_007613.1 3919660 3920163 R Code: L; COG: COG1662; IS1 ORF2 complement(3919660..3920163) Shigella boydii Sb227 3782872 YP_410169.1 CDS SBO_3890 NC_007613.1 3920256 3920426 D IS1 encoded protein 3920256..3920426 Shigella boydii Sb227 3782873 YP_410170.1 CDS rspB NC_007613.1 3920478 3921488 D Code: ER; COG: COG1063; dehydrogenase 3920478..3921488 Shigella boydii Sb227 3782874 YP_410171.2 CDS SBO_3892 NC_007613.1 3921634 3922539 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(3921634..3922539) Shigella boydii Sb227 3782875 YP_410172.1 CDS SBO_3893 NC_007613.1 3922497 3922862 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(3922497..3922862) Shigella boydii Sb227 3782876 YP_410173.1 CDS SBO_3894 NC_007613.1 3923044 3924228 D transporter 3923044..3924228 Shigella boydii Sb227 3782877 YP_410174.1 CDS insB NC_007613.1 3924239 3924742 R Code: L; COG: COG1662; IS1 ORF2 complement(3924239..3924742) Shigella boydii Sb227 3782878 YP_410175.1 CDS SBO_3896 NC_007613.1 3924817 3925026 D IS1 encoded protein 3924817..3925026 Shigella boydii Sb227 3782879 YP_410176.1 CDS SBO_3897 NC_007613.1 3925029 3925541 D transport protein, shikimate 3925029..3925541 Shigella boydii Sb227 3782880 YP_410177.1 CDS SBO_3898 NC_007613.1 3925531 3926418 D hypothetical protein 3925531..3926418 Shigella boydii Sb227 3782881 YP_410178.2 CDS yihX NC_007613.1 3926559 3927158 D Code: R; COG: COG1011; phosphatase 3926559..3927158 Shigella boydii Sb227 3782882 YP_410179.1 CDS rbn NC_007613.1 3927273 3928025 D RNase BN; required for 3' maturation of certain phage T4-encoded tRNAs; forms a dimer; specific for immature tRNA substrates containing incorrect residues within the universal CCA sequence; 3' to 5' exoribonuclease; ribonuclease BN 3927273..3928025 Shigella boydii Sb227 3782883 YP_410180.1 CDS yihZ NC_007613.1 3928022 3928459 D hydrolyzes D-tyrosyl-tRNA(Tyr) into D-tyrosine and free tRNA(Tyr); possible defense mechanism against a harmful effect of D-tyrosine; D-tyrosyl-tRNA(Tyr) deacylase 3928022..3928459 Shigella boydii Sb227 3782884 YP_410181.1 CDS yiiD NC_007613.1 3928456 3929445 D Code: KR; COG: COG0454; acetyltransferase 3928456..3929445 Shigella boydii Sb227 3782885 YP_410182.1 CDS SBO_3903 NC_007613.1 3930381 3931094 R Code: L; COG: COG2801; IS600 ORF2 complement(3930381..3931094) Shigella boydii Sb227 3782886 YP_410183.1 CDS yiiF NC_007613.1 3932005 3932247 D hypothetical protein 3932005..3932247 Shigella boydii Sb227 3782887 YP_410184.1 CDS fdhE NC_007613.1 3932577 3933506 R affects formate dehydrogenase N; required for the formation of active formate dehydrogenase; formate dehydrogenase accessory protein FdhE complement(3932577..3933506) Shigella boydii Sb227 3782888 YP_410185.1 CDS fdoI NC_007613.1 3933503 3934138 R cytochrome b556(FDO) component; heme containing; formate dehydrogenase-O subunit gamma complement(3933503..3934138) Shigella boydii Sb227 3782889 YP_410186.1 CDS fdoH NC_007613.1 3934135 3935037 R Code: C; COG: COG0437; formate dehydrogenase-O, iron-sulfur subunit complement(3934135..3935037) Shigella boydii Sb227 3782890 YP_410187.1 CDS fdoG NC_007613.1 3935050 3938100 R Code: C; COG: COG0243; formate dehydrogenase-O, major subunit complement(3935050..3938100) Shigella boydii Sb227 3782891 YP_410188.1 CDS fdhD NC_007613.1 3938294 3939127 D affects formate dehydrogenase N; involved in the production or activity of formate dehydrogenase-H which is active when nitrate is not present during anaerobic growth; formate dehydrogenase accessory protein 3938294..3939127 Shigella boydii Sb227 3782892 YP_410189.1 CDS yiiG NC_007613.1 3939281 3940228 D hypothetical protein 3939281..3940228 Shigella boydii Sb227 3782893 YP_410190.1 CDS insB NC_007613.1 3940222 3940725 R Code: L; COG: COG1662; IS1 ORF2 complement(3940222..3940725) Shigella boydii Sb227 3782894 YP_410191.1 CDS SBO_3912 NC_007613.1 3940800 3940982 D IS1 encoded protein 3940800..3940982 Shigella boydii Sb227 3782895 YP_410192.1 CDS frvR NC_007613.1 3941147 3942895 R repressor of the frv operon, involved in phosphoenolpyruvate:sugar phosphotransferase system; frv operon regulatory protein complement(3941147..3942895) Shigella boydii Sb227 3782896 YP_410193.1 CDS frvX NC_007613.1 3942895 3943965 R with FrvABR is part of the phosphoenolpyruvate-dependent sugar phosphotransferase system which may be involved in the transport and phosphorylation of sugars; fructose-specific phosphotransferase system protein FrvX complement(3942895..3943965) Shigella boydii Sb227 3782897 YP_410194.1 CDS frvB NC_007613.1 3943955 3945412 R Code: G; COG: COG1299; PTS system transporter subunits IIBC complement(3943955..3945412) Shigella boydii Sb227 3782898 YP_410195.1 CDS frvA NC_007613.1 3945417 3945863 R with FrvBRX is part of the phosphoenolpyruvate-dependent sugar phosphotransferase system involved in the transport and phosphorylation of sugars; possibly responsible for the sugar specificity of the system; fructose-like phosphotransferase system subunit EIIA complement(3945417..3945863) Shigella boydii Sb227 3782899 YP_410196.1 CDS SBO_3917 NC_007613.1 3946164 3946349 R IS1 encoded protein complement(3946164..3946349) Shigella boydii Sb227 3782900 YP_410197.1 CDS insB NC_007613.1 3946442 3946945 D Code: L; COG: COG1662; IS1 ORF2 3946442..3946945 Shigella boydii Sb227 3782901 YP_410198.1 CDS yiiL NC_007613.1 3946956 3947255 R Code: S; COG: COG3254; hypothetical protein complement(3946956..3947255) Shigella boydii Sb227 3782902 YP_410199.1 CDS rhaD NC_007613.1 3947265 3948089 R Code: G; COG: COG0235; rhamnulose-1-phosphate aldolase complement(3947265..3948089) Shigella boydii Sb227 3782903 YP_410200.1 CDS rhaA NC_007613.1 3948356 3949615 R catalyzes the formation of L-rhamnulose from L-rhamnose; L-rhamnose isomerase complement(3948356..3949615) Shigella boydii Sb227 3782904 YP_410201.1 CDS rhaB NC_007613.1 3949612 3951024 R catalyzes the ATP-dependent phosphorylation of rhamnulose; rhamnulokinase complement(3949612..3951024) Shigella boydii Sb227 3782905 YP_410202.1 CDS rhaS NC_007613.1 3951312 3952148 D activates the expression of the rhaBAD operon and rhaT gene; transcriptional activator RhaS 3951312..3952148 Shigella boydii Sb227 3782906 YP_410203.1 CDS rhaR NC_007613.1 3952132 3953070 D activates the expression of rhaRS in response to L-rhamnose; transcriptional activator RhaR 3952132..3953070 Shigella boydii Sb227 3782907 YP_410204.1 CDS rhaT NC_007613.1 3953067 3954101 R transports L-rhamnose and L-lyxose into the cell; rhamnose-proton symporter complement(3953067..3954101) Shigella boydii Sb227 3782908 YP_410205.1 CDS sodA NC_007613.1 3954385 3955005 D SodA; manganese binding; only present under aerobic conditions; destroys free radicals; superoxide dismutase 3954385..3955005 Shigella boydii Sb227 3782909 YP_410206.2 CDS kdgT NC_007613.1 3955284 3956249 D transports degraded pectin products into the bacterial cell; 2-keto-3-deoxygluconate permease 3955284..3956249 Shigella boydii Sb227 3782910 YP_410207.2 CDS yiiM NC_007613.1 3956398 3957072 D Code: S; COG: COG2258; hypothetical protein 3956398..3957072 Shigella boydii Sb227 3782911 YP_410208.1 CDS cpxA NC_007613.1 3957178 3958551 R probable sensor protein (histidine protein kinase), acting on arcA; part of two-component CpxA/CpxR system; senses envelope stress; upregulates a number of periplasmic folding and trafficking factors; two-component sensor protein complement(3957178..3958551) Shigella boydii Sb227 3782912 YP_410209.1 CDS cpxR NC_007613.1 3958548 3959246 R response regulator in two-component regulatory system with CpxA; part of the envelope stress response system; DNA-binding transcriptional regulator CpxR complement(3958548..3959246) Shigella boydii Sb227 3782913 YP_410210.2 CDS cpxP NC_007613.1 3959396 3959896 D repressor of the Cpx envelope stress response pathway which occurs via periplasmic interactions with CpxA; CpxP is degraded by DegP protease especially in the presence of misfolded substrates; repressor CpxP 3959396..3959896 Shigella boydii Sb227 3782914 YP_410211.1 CDS fieF NC_007613.1 3960044 3960946 D member of cation diffusion facilitator family; CDF; membrane-bound; induced by both zinc and iron, but does not induce resistance to zinc; can transport zinc(II) in a proton-dependent manner; instead this protein induces iron resistance; forms dimers; ferrous iron efflux protein F 3960044..3960946 Shigella boydii Sb227 3782915 YP_410212.1 CDS pfkA NC_007613.1 3961127 3962089 D catalyzes the formation of D-fructose 1,6-bisphosphate from D-fructose 6-phosphate in glycolysis; 6-phosphofructokinase 3961127..3962089 Shigella boydii Sb227 3782916 YP_410213.1 CDS sbp NC_007613.1 3962409 3963398 D Code: P; COG: COG1613; sulfate transporter subunit 3962409..3963398 Shigella boydii Sb227 3782917 YP_410214.1 CDS cdh NC_007613.1 3963505 3964260 D Code: I; COG: COG2134; CDP-diacylglycerol pyrophosphatase 3963505..3964260 Shigella boydii Sb227 3782918 YP_410215.1 CDS tpiA NC_007613.1 3964315 3965082 R Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate; triosephosphate isomerase complement(3964315..3965082) Shigella boydii Sb227 3782919 YP_410216.1 CDS yiiQ NC_007613.1 3965190 3965789 R hypothetical protein complement(3965190..3965789) Shigella boydii Sb227 3782920 YP_410217.1 CDS yiiR NC_007613.1 3965890 3966330 D Code: S; COG: COG3152; hypothetical protein 3965890..3966330 Shigella boydii Sb227 3782921 YP_410218.1 CDS yiiS NC_007613.1 3966542 3966841 D Code: S; COG: COG3691; hypothetical protein 3966542..3966841 Shigella boydii Sb227 3782922 YP_410219.1 CDS yiiT NC_007613.1 3966868 3967296 D with UspC and Usp E is involved in resistance to UV radiation; universal stress protein UspD 3966868..3967296 Shigella boydii Sb227 3782923 YP_410220.1 CDS fpr NC_007613.1 3967301 3968047 R Code: C; COG: COG1018; ferredoxin-NADP reductase complement(3967301..3968047) Shigella boydii Sb227 3782924 YP_410221.1 CDS glpX NC_007613.1 3968144 3969154 R type II fructose 1,6-bisphosphatae; in Escherichia coli this protein forms a dimer and binds manganese; fructose 1,6-bisphosphatase II complement(3968144..3969154) Shigella boydii Sb227 3782925 YP_410222.1 CDS glpK NC_007613.1 3969289 3970797 R Converts glycerol and ADP to glycerol-3-phosphate and ADP; glycerol kinase complement(3969289..3970797) Shigella boydii Sb227 3782926 YP_410223.1 CDS glpF NC_007613.1 3970820 3971665 R Code: G; COG: COG0580; facilitated diffusion of glycerol complement(3970820..3971665) Shigella boydii Sb227 3782927 YP_410224.1 CDS yiiU NC_007613.1 3972091 3972336 D Code: S; COG: COG3074; hypothetical protein 3972091..3972336 Shigella boydii Sb227 3782928 YP_410225.1 CDS menG NC_007613.1 3972421 3972906 R menaquinone biosynthesis, unknown; regulator of RNase E; increases half-life and abundance of RNAs; interacts with RNase E possibly inhibiting catalytic activity; ribonuclease activity regulator protein RraA complement(3972421..3972906) Shigella boydii Sb227 3782929 YP_410226.1 CDS menA NC_007613.1 3972999 3973925 R 1,4-dihydroxy-2-naphthoate --> dimethylmenaquinone; catalyzes the formation of dimethylmenaquinone from 1,4-dihydroxy-2-naphthoate and octaprenyl diphosphate; 1,4-dihydroxy-2-naphthoate octaprenyltransferase complement(3972999..3973925) Shigella boydii Sb227 3782930 YP_410227.1 CDS hslU NC_007613.1 3973992 3975323 R similar to chaperones; heat shock protein involved in degradation of misfolded proteins; ATP-dependent protease ATP-binding subunit HslU complement(3973992..3975323) Shigella boydii Sb227 3782931 YP_410228.1 CDS hslV NC_007613.1 3975333 3975863 R heat shock protein involved in degradation of misfolded proteins; ATP-dependent protease peptidase subunit complement(3975333..3975863) Shigella boydii Sb227 3782932 YP_410229.1 CDS ftsN NC_007613.1 3975956 3976915 R Code: D; COG: COG3087; cell division protein FtsN complement(3975956..3976915) Shigella boydii Sb227 3782933 YP_410230.1 CDS cytR NC_007613.1 3977007 3978032 R regulator for deo operon, udp, cdd, tsx, nupC, and nupG; negatively controls the transcription initiation of genes such as deoCABD, udp, and cdd encoding catabolizing enzymes and nupC, nupG, and tsx encoding transporting and pore-forming proteins; DNA-binding transcriptional regulator CytR complement(3977007..3978032) Shigella boydii Sb227 3782934 YP_410231.1 CDS priA NC_007613.1 3978188 3980386 R factor Y; helicase; binding of PriA to forked DNA starts the assembly of the primosome, also possesses 3'-5' helicase activity; primosome assembly protein PriA complement(3978188..3980386) Shigella boydii Sb227 3782935 YP_410232.1 CDS rpmE NC_007613.1 3980589 3980801 D RpmE; there appears to be two types of ribosomal proteins L31 in bacterial genomes; some contain a CxxC motif while others do not; Bacillus subtilis has both types; the proteins in this cluster have the CXXC motif; RpmE is found in exponentially growing Bacilli while YtiA was found after exponential growth; expression of ytiA is controlled by a zinc-specific transcriptional repressor; RpmE contains one zinc ion and a CxxC motif is responsible for this binding; forms an RNP particle along with proteins L5, L18, and L25 and 5S rRNA; found crosslinked to L2 and L25 and EF-G; may be near the peptidyltransferase site of the 50S ribosome; 50S ribosomal protein L31 3980589..3980801 Shigella boydii Sb227 3782936 YP_410233.1 CDS SBO_3954 NC_007613.1 3980961 3983744 D Code: M; COG: COG3209; protein in rhs element 3980961..3983744 Shigella boydii Sb227 3782937 YP_410234.1 CDS insB NC_007613.1 3983972 3984475 D Code: L; COG: COG1662; IS1 ORF2 3983972..3984475 Shigella boydii Sb227 3782938 YP_410235.1 CDS SBO_3956 NC_007613.1 3985181 3985495 R iso-IS1 ORF2 complement(3985181..3985495) Shigella boydii Sb227 3782939 YP_410236.1 CDS yiiX NC_007613.1 3986118 3986726 R member of the NlpC/P60 superfamily of peptidases; peptidoglycan peptidase complement(3986118..3986726) Shigella boydii Sb227 3782940 YP_410237.1 CDS metJ NC_007613.1 3986910 3987227 R repressor of all met genes but metF; when combined with S-adenosylmethionine represses the expression of the methionine regulon and of proteins involved in S-adenosylmethionine synthesis; transcriptional repressor protein MetJ complement(3986910..3987227) Shigella boydii Sb227 3782941 YP_410238.1 CDS metB NC_007613.1 3987504 3988664 D catalyzes the formation of cystathionine from L-cysteine and O-succinyl-L-homoserine; cystathionine gamma-synthase 3987504..3988664 Shigella boydii Sb227 3782942 YP_410239.1 CDS metL NC_007613.1 3988667 3991099 D aspartokinase II and homoserine dehydrogenase II; multifunctional homodimeric enzyme that catalyzes the phosphorylation of aspartate to form aspartyl-4-phosphate as well as conversion of aspartate semialdehyde to homoserine; functions in a number of amino acid biosynthetic pathways; bifunctional aspartate kinase II/homoserine dehydrogenase II 3988667..3991099 Shigella boydii Sb227 3782943 YP_410240.1 CDS metF NC_007613.1 3991448 3992338 D MTHFR; catalyzes NADH-linked reduction of 5,10-methylenetetrahydrofolate to 5-methyltetrahydrofolate using FAD as a cofactor; 5,10-methylenetetrahydrofolate reductase 3991448..3992338 Shigella boydii Sb227 3782944 YP_410241.1 CDS katG NC_007613.1 3992667 3994847 D catalase; Code: P; COG: COG0376; hydroperoxidase HPI(I) 3992667..3994847 Shigella boydii Sb227 3782945 YP_410242.1 CDS yijE NC_007613.1 3994908 3995846 D Code: GER; COG: COG0697; hypothetical protein 3994908..3995846 Shigella boydii Sb227 3782946 YP_410243.1 CDS yijF NC_007613.1 3995873 3996490 R Code: S; COG: COG3738; hypothetical protein complement(3995873..3996490) Shigella boydii Sb227 3782947 YP_410244.2 CDS gldA NC_007613.1 3996764 3997867 R forms dimers and octamers; involved in conversion of glycerol to dihydroxy-acetone; glycerol dehydrogenase complement(3996764..3997867) Shigella boydii Sb227 3782948 YP_410245.1 CDS talC NC_007613.1 3997878 3998540 R similar to transaldolase from Escherichia coli; many organisms have multiple copies; fructose-6-phosphate aldolase complement(3997878..3998540) Shigella boydii Sb227 3782949 YP_410246.1 CDS ptsA NC_007613.1 3998552 4000687 R Code: G; COG: COG1080; PEP-protein phosphotransferase system enzyme I complement(3998552..4000687) Shigella boydii Sb227 3782950 YP_410247.1 CDS frwC NC_007613.1 4001362 4002441 D FrwC with FrwB, FrwD and PtsA forms a PEP-dependent sugar phosphotransferase system permease which may phosphorylate and transport sugars into the cell; forms translocation channel and contains the specific substrate-binding site; fructose-like permease EIIC subunit 2 4001362..4002441 Shigella boydii Sb227 3782951 YP_410248.1 CDS frwB NC_007613.1 4002456 4002776 D FrwB with FrwC, FrwD and PtsA forms a PEP-dependent sugar phosphotransferase system (PTS) permease which may phosphorylate and transport sugars into the cell; cytoplasmic protein that interacts with complex EIIA; contains the second phosphorylation site of the PTS; PTS system fructose-like transporter subunit IIB 4002456..4002776 Shigella boydii Sb227 3782952 YP_410249.1 CDS pflD NC_007613.1 4002827 4005124 D involved in production of D-lactate from glucose under microaerobic conditions; cytoplasmic protein; formate acetyltransferase 2 4002827..4005124 Shigella boydii Sb227 3782953 YP_410250.1 CDS pflC NC_007613.1 4005090 4005968 D Code: O; COG: COG1180; pyruvate formate lyase II activase 4005090..4005968 Shigella boydii Sb227 3782954 YP_410251.1 CDS frwD NC_007613.1 4005970 4006311 D FrwD with FrwB, FrwC and PtsA forms a PEP-dependent sugar phosphotransferase system permease which may phosphorylate and transport sugars into the cell; phosphorylated by EIIA; FrwB homolog; fructose-like phosphotransferase EIIB subunit 3 4005970..4006311 Shigella boydii Sb227 3782955 YP_410252.1 CDS yijO NC_007613.1 4006298 4007149 R Code: K; COG: COG2207; ARAC-type regulatory protein complement(4006298..4007149) Shigella boydii Sb227 3782956 YP_410253.1 CDS yijP NC_007613.1 4007364 4009097 R Code: R; COG: COG2194; hypothetical protein complement(4007364..4009097) Shigella boydii Sb227 3782957 YP_410254.1 CDS ppc NC_007613.1 4009280 4011931 R catalyzes the formation of oxaloacetate from phosphoenolpyruvate; phosphoenolpyruvate carboxylase complement(4009280..4011931) Shigella boydii Sb227 3782958 YP_410255.1 CDS argE NC_007613.1 4012283 4013434 R catalyzes the formation of L-ornithine from N(2)-acetyl-L-ornithine in arginine biosynthesis; acetylornithine deacetylase complement(4012283..4013434) Shigella boydii Sb227 3782959 YP_410256.1 CDS argC NC_007613.1 4013588 4014592 D catalyzes the reduction of N-acetyl-5-glutamyl phosphate to N-acetyl-L-glutamate 5-semialdehyde in arginine biosynthesis and the reduction of N-acetyl-gamma-aminoadipyl-phosphate to N-acetyl-L-aminoadipate-semialdehyde in lysine biosynthesis; involved in both the arginine and lysine biosynthetic pathways; lysine is produced via the AAA pathway, lysine from alpha-aminoadipate; N-acetyl-gamma-glutamyl-phosphate reductase 4013588..4014592 Shigella boydii Sb227 3782960 YP_410257.2 CDS argB NC_007613.1 4014603 4015376 D catalyzes the phosphorylation of N-acetyl-L-glutamate to form N-acetyl-L-glutamate 5-phosphate; acetylglutamate kinase 4014603..4015376 Shigella boydii Sb227 3782961 YP_410258.1 CDS argH NC_007613.1 4015437 4016810 D catalyzes the formation of arginine from (N-L-arginino)succinate; argininosuccinate lyase 4015437..4016810 Shigella boydii Sb227 3782962 YP_410259.1 CDS oxyR NC_007613.1 4017077 4017994 D activator, hydrogen peroxide-inducible genes; Activates the expression of a regulon of hydrogen peroxide-inducible genes such as katG, gor, ahpC, ahpF, oxyS, dps, fur and grxA; DNA-binding transcriptional regulator OxyR 4017077..4017994 Shigella boydii Sb227 3782963 YP_410260.2 CDS udhA NC_007613.1 4017977 4019377 R catalyzes the conversion of NADPH to NADH; soluble pyridine nucleotide transhydrogenase complement(4017977..4019377) Shigella boydii Sb227 3782964 YP_410261.1 CDS yijC NC_007613.1 4019644 4020348 D negatively controls the expression of fabA and fabB, genes involved in the unsaturated fatty acid biosynthesis; DNA-binding transcriptional repressor FabR 4019644..4020348 Shigella boydii Sb227 3782965 YP_410262.1 CDS yijD NC_007613.1 4020348 4020707 D hypothetical protein 4020348..4020707 Shigella boydii Sb227 3782966 YP_410263.1 CDS trmA NC_007613.1 4020747 4021847 R catalyzes the formation of 5-methyl-uridine at position 54 in all tRNAs; tRNA (uracil-5-)-methyltransferase complement(4020747..4021847) Shigella boydii Sb227 3782967 YP_410264.2 CDS murI NC_007613.1 4024009 4024866 D required for biosynthesis of D-glutamate and peptidoglycan; converts L-glutamate to D-glutamate, a component of peptidoglycan; glutamate racemase 4024009..4024866 Shigella boydii Sb227 3782969 YP_410265.1 CDS murB NC_007613.1 4030479 4031507 D catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis; UDP-N-acetylenolpyruvoylglucosamine reductase 4030479..4031507 Shigella boydii Sb227 3782975 YP_410266.1 CDS birA NC_007613.1 4031504 4032469 D biotin operon repressor; catalyzes the formation of biotinyl-5'-AMP, also acts as a transcriptional repressor of the biotin operon; biotin--protein ligase 4031504..4032469 Shigella boydii Sb227 3782976 YP_410267.1 CDS coaA NC_007613.1 4032498 4033448 R catalyzes the formation of (R)-4'-phosphopantothenate in coenzyme A biosynthesis; pantothenate kinase complement(4032498..4033448) Shigella boydii Sb227 3782977 YP_410268.1 CDS SBO_3995 NC_007613.1 4033635 4033790 R hypothetical protein complement(4033635..4033790) Shigella boydii Sb227 3782978 YP_410269.1 CDS tufB NC_007613.1 4034366 4035550 D EF-Tu; promotes GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis; when the tRNA anticodon matches the mRNA codon, GTP hydrolysis results; the inactive EF-Tu-GDP leaves the ribosome and release of GDP is promoted by elongation factor Ts; many prokaryotes have two copies of the gene encoding EF-Tu; elongation factor Tu 4034366..4035550 Shigella boydii Sb227 3782983 YP_410270.1 CDS secE NC_007613.1 4035780 4036163 D forms a complex with SecY and SecG; SecYEG forms a protein-conducting channel to which secA binds and translocates targeted polypeptides across the cytoplasmic membrane, a process driven by ATP and a proton-motive force; preprotein translocase subunit SecE 4035780..4036163 Shigella boydii Sb227 3782984 YP_410271.1 CDS nusG NC_007613.1 4036165 4036710 D component in transcription antitermination; Modulates Rho-dependent transcription termination; transcription antitermination protein NusG 4036165..4036710 Shigella boydii Sb227 3782985 YP_410272.1 CDS rplK NC_007613.1 4036870 4037298 D binds directly to 23S ribosomal RNA; 50S ribosomal protein L11 4036870..4037298 Shigella boydii Sb227 3782986 YP_410273.1 CDS rplA NC_007613.1 4037302 4038006 D regulates synthesis of L1 and L11; in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA; 50S ribosomal protein L1 4037302..4038006 Shigella boydii Sb227 3782987 YP_410274.1 CDS rplJ NC_007613.1 4038419 4038916 D binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit; 50S ribosomal protein L10 4038419..4038916 Shigella boydii Sb227 3782988 YP_410275.1 CDS rplL NC_007613.1 4038983 4039348 D present in two forms; L12 is normal, while L7 is aminoacylated at the N-terminal serine; the only multicopy ribosomal protein; 4:1 ratio of L7/L12 per ribosome; two L12 dimers bind L10; critically important for translation efficiency and fidelity; stimulates GTPase activity of translation factors; 50S ribosomal protein L7/L12 4038983..4039348 Shigella boydii Sb227 3782989 YP_410276.1 CDS rpoB NC_007613.1 4039668 4043696 D DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates; beta subunit is part of the catalytic core which binds with a sigma factor to produce the holoenzyme; DNA-directed RNA polymerase subunit beta 4039668..4043696 Shigella boydii Sb227 3782990 YP_410277.1 CDS rpoC NC_007613.1 4043773 4047996 D DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Subunit beta' binds to sigma factor allowing it to bind to the -10 region of the promoter; DNA-directed RNA polymerase subunit beta' 4043773..4047996 Shigella boydii Sb227 3782991 YP_410278.1 CDS htrC NC_007613.1 4048209 4048748 D heat shock protein 4048209..4048748 Shigella boydii Sb227 3782992 YP_410279.1 CDS thiH NC_007613.1 4049158 4050291 R in Escherichia coli this enzyme functions in thiamine biosynthesis along with thiFSGI and iscS; with ThiFSG catalyzes the formation of thiazole phosphate from tyrosine, cysteine and 1-deoxy-D-xylulose-5-phosphate; forms a complex with ThiG; contains an iron-sulfur center; thiamine biosynthesis protein ThiH complement(4049158..4050291) Shigella boydii Sb227 3782993 YP_410280.2 CDS thiG NC_007613.1 4050288 4051058 R functions in thiamine (vitamin B1) biosynthesis; in Bacillus subtilis this enzyme catalyzes the formation of thiazole from dehydroxyglycine and 1-deoxy-D-xylulose-5-phosphate and ThiS-thiocarboxylate; thiazole synthase complement(4050288..4051058) Shigella boydii Sb227 3782994 YP_410281.1 CDS thiS NC_007613.1 4051060 4051260 R involved in thiamine biosynthesis; with ThiF, ThiG, and ThiO catalyzes the formation of the thiazole moiety of thiamine pyrophosphate; sulfur carrier protein ThiS complement(4051060..4051260) Shigella boydii Sb227 3782995 YP_410282.1 CDS thiE NC_007613.1 4051992 4052627 R catalyzes the formation of thiamine monophosphate from 4-methyl-5-(beta-hydroxyethyl)-thiazole monophosphate and 4-amino-5-hydroxymethyl pyrimidine pyrophosphate; thiamine-phosphate pyrophosphorylase complement(4051992..4052627) Shigella boydii Sb227 3782997 YP_410283.1 CDS thiC NC_007613.1 4052627 4054522 R required for the synthesis of the hydromethylpyrimidine moiety of thiamine; thiamine biosynthesis protein ThiC complement(4052627..4054522) Shigella boydii Sb227 3782998 YP_410284.1 CDS yjaE NC_007613.1 4054756 4055232 R binds specifically to the major sigma factor sigma 70; active in stationary phase; anti-RNA polymerase sigma 70 factor complement(4054756..4055232) Shigella boydii Sb227 3782999 YP_410285.1 CDS nudC NC_007613.1 4055327 4056100 D can catalyze hydrolysis of broad range of dinucleotide pyrophosphates but prefers reduced form of NADH; requires divalent metal ions such as magnesium and manganese and produces two mononucleoside 5'-phosphates; NADH pyrophosphatase 4055327..4056100 Shigella boydii Sb227 3783000 YP_410286.1 CDS hemE NC_007613.1 4056140 4057204 D catalyzes the formation of coproporphyrinogen from uroporphyrinogen III; uroporphyrinogen decarboxylase 4056140..4057204 Shigella boydii Sb227 3783001 YP_410287.2 CDS nfi NC_007613.1 4057214 4057885 D deoxyinosine 3'endoduclease; Selectively cleaves double-stranded DNA at the second phosphodiester bond 3' to a deoxyinosine leaving behind the intact lesion on the nicked DNA; cleaves DNA containing urea residues, AP sites, base mismatches, insertion/deletion mismatches, flaps, and pseudo-Y structures; endonuclease V 4057214..4057885 Shigella boydii Sb227 3783002 YP_410288.1 CDS yjaG NC_007613.1 4057928 4058518 D Code: S; COG: COG3068; hypothetical protein 4057928..4058518 Shigella boydii Sb227 3783003 YP_410289.1 CDS hupA NC_007613.1 4058705 4058977 D HU-2; histone-like DNA-binding protein; transcriptional regulator HU subunit alpha 4058705..4058977 Shigella boydii Sb227 3783004 YP_410290.1 CDS yjaH NC_007613.1 4058990 4059685 D hypothetical protein 4058990..4059685 Shigella boydii Sb227 3783005 YP_410291.2 CDS zraP NC_007613.1 4059687 4060112 R Code: UNTP; COG: COG3678; zinc resistance protein complement(4059687..4060112) Shigella boydii Sb227 3783006 YP_410292.1 CDS hydH NC_007613.1 4060350 4061726 D hydrogenase 3 activity; Code: T; COG: COG0642; sensor protein ZraS 4060350..4061726 Shigella boydii Sb227 3783007 YP_410293.1 CDS hydG NC_007613.1 4061723 4062949 D sensor HydH; Code: T; COG: COG2204; response regulator of hydrogenase 3 activity 4061723..4062949 Shigella boydii Sb227 3783008 YP_410294.1 CDS purD NC_007613.1 4063044 4064333 R GAR synthetase; catalyzes the formation of N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-D-ribosylamine and glycine in purine biosynthesis; phosphoribosylamine--glycine ligase complement(4063044..4064333) Shigella boydii Sb227 3783009 YP_410295.1 CDS purH NC_007613.1 4064345 4065934 R AICAR formyltransferase; IMP cyclohydrolase; involved in de novo purine biosynthesis; bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase complement(4064345..4065934) Shigella boydii Sb227 3783010 YP_410296.1 CDS yjaB NC_007613.1 4071677 4071967 R Code: KR; COG: COG0454; hypothetical protein complement(4071677..4071967) Shigella boydii Sb227 3783015 YP_410297.1 CDS metA NC_007613.1 4072281 4073210 D catalyzes the formation of O-succinyl-L-homoserine from succinyl-CoA and L-homoserine in methionine biosynthesis; homoserine O-succinyltransferase 4072281..4073210 Shigella boydii Sb227 3783016 YP_410298.1 CDS aceB NC_007613.1 4073479 4075080 D Catalyzes the aldol condensation of glyoxylate with acetyl-CoA to form malate as part of the second step of the glyoxylate bypass and an alternative to the tricarboxylic acid cycle; malate synthase 4073479..4075080 Shigella boydii Sb227 3783017 YP_410299.1 CDS aceK NC_007613.1 4076688 4078412 D catalyzes the phosphorylation/dephosphorylation of the enzyme isocitrate dehydrogenase on a specific serine which regulates activity; unphosphorylated IDH is fully active when cells are grown on glucose while the enzyme becomes phosphorylated and inactive in the presence of acetate or ethanol; bifunctional isocitrate dehydrogenase kinase/phosphatase 4076688..4078412 Shigella boydii Sb227 3783019 YP_410300.1 CDS insB NC_007613.1 4078881 4079384 D Code: L; COG: COG1662; IS1 ORF2 4078881..4079384 Shigella boydii Sb227 3783021 YP_410301.2 CDS iclR NC_007613.1 4079444 4080268 R regulates the glyoxylate bypass operon (aceBAK), which encodes isocitrate lyase, malate synthase and isocitrate dehydrogenase kinase/phosphorylase; IclR family transcriptional regulator complement(4079444..4080268) Shigella boydii Sb227 3783022 YP_410302.1 CDS metH NC_007613.1 4080468 4084151 D repressor of metE and metF; one of two methionine synthases in Escherichia coli; MetH catalyzes a methyl transfer reaction from methyltetrahydrofolate to homocysteine to create methionine; requires zinc for activity; B12-dependent methionine synthase 4080468..4084151 Shigella boydii Sb227 3783023 YP_410303.1 CDS yjbB NC_007613.1 4084371 4086002 D Code: P; COG: COG1283; alpha helix protein 4084371..4086002 Shigella boydii Sb227 3783024 YP_410304.1 CDS pepE NC_007613.1 4086093 4086782 R a dipeptidase where amino-terminal residue is aspartate; alpha-aspartyl dipeptidase; catalyzes the hydrolysis of dipeptides with an N-terminal aspartate residue; belongs to peptidase S51 family; peptidase E complement(4086093..4086782) Shigella boydii Sb227 3783025 YP_410305.1 CDS sorE NC_007613.1 4087165 4088394 R Code: ER; COG: COG1063; L-sorbose-1-P-reductase complement(4087165..4088394) Shigella boydii Sb227 3783026 YP_410306.1 CDS sorM NC_007613.1 4088428 4089270 R Code: G; COG: COG3716; PTS system sorbose transporter subunit IID complement(4088428..4089270) Shigella boydii Sb227 3783027 YP_410307.1 CDS sorA NC_007613.1 4089281 4090078 R Code: G; COG: COG3715; PTS system sorbose transporter subunit IIC complement(4089281..4090078) Shigella boydii Sb227 3783028 YP_410308.1 CDS sorB NC_007613.1 4090144 4090638 R Code: G; COG: COG3444; PTS system sorbose transporter subunit IIB complement(4090144..4090638) Shigella boydii Sb227 3783029 YP_410309.1 CDS sorF NC_007613.1 4090638 4091045 R Code: G; COG: COG2893; PTS system sorbose transporter subunit IIA complement(4090638..4091045) Shigella boydii Sb227 3783030 YP_410310.1 CDS sorD NC_007613.1 4091055 4091861 R Converts D-sorbitol-dphosphate to D-fructose-6-phosphate; sorbitol-6-phosphate 2-dehydrogenase complement(4091055..4091861) Shigella boydii Sb227 3783031 YP_410311.1 CDS SBO_4049 NC_007613.1 4091931 4092878 R Code: K; COG: COG2390; transcriptional regulator of sorbose uptake and utilization genes complement(4091931..4092878) Shigella boydii Sb227 3783032 YP_410312.1 CDS yjbC NC_007613.1 4093226 4094098 D catalyzes the synthesis of pseudouridine from U-2604 in the 23S ribosomal RNA; 23S rRNA pseudouridine synthase F 4093226..4094098 Shigella boydii Sb227 3783033 YP_410313.1 CDS yjbD NC_007613.1 4094231 4094503 R hypothetical protein complement(4094231..4094503) Shigella boydii Sb227 3783034 YP_410314.1 CDS lysC NC_007613.1 4094755 4096104 R lysine sensitive; catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP; functions in amino acid biosynthesis; lysine sensitive; aspartate kinase III complement(4094755..4096104) Shigella boydii Sb227 3783035 YP_410315.1 CDS pgi NC_007613.1 4096629 4098278 D functions in sugar metabolism in glycolysis and the Embden-Meyerhof pathways (EMP) and in gluconeogenesis; catalyzes reversible isomerization of glucose-6-phosphate to fructose-6-phosphate; member of PGI family; glucose-6-phosphate isomerase 4096629..4098278 Shigella boydii Sb227 3783036 YP_410316.1 CDS yjbE NC_007613.1 4098740 4098982 D hypothetical protein 4098740..4098982 Shigella boydii Sb227 3783037 YP_410317.1 CDS yjbF NC_007613.1 4099066 4099734 D hypothetical protein 4099066..4099734 Shigella boydii Sb227 3783038 YP_410318.1 CDS yjbG NC_007613.1 4099944 4100468 D hypothetical protein 4099944..4100468 Shigella boydii Sb227 3783039 YP_410319.1 CDS yjbH NC_007613.1 4100468 4102564 D hypothetical protein 4100468..4102564 Shigella boydii Sb227 3783040 YP_410320.1 CDS SBO_4058 NC_007613.1 4102611 4102889 R hypothetical protein complement(4102611..4102889) Shigella boydii Sb227 3783041 YP_410321.1 CDS yjbA NC_007613.1 4103159 4103557 D Code: S; COG: COG3223; phosphate-starvation-inducible protein PsiE 4103159..4103557 Shigella boydii Sb227 3783042 YP_410322.1 CDS SBO_4061 NC_007613.1 4104307 4104570 R IS1 encoded protein complement(4104307..4104570) Shigella boydii Sb227 3783044 YP_410323.1 CDS insB NC_007613.1 4104663 4105166 D Code: L; COG: COG1662; IS1 ORF2 4104663..4105166 Shigella boydii Sb227 3783045 YP_410324.1 CDS tyrB NC_007613.1 4105353 4106546 R tyrosine repressible; catalyzes the formation of L-glutamate and an aromatic oxo acid from an aromatic amino acid and 2-oxoglutarate; aromatic amino acid aminotransferase complement(4105353..4106546) Shigella boydii Sb227 3783046 YP_410325.1 CDS alr NC_007613.1 4106799 4107878 R converts L-alanine to D-alanine which is used in cell wall biosynthesis; binds one pyridoxal phosphate per monomer; forms a homodimer; alanine racemase complement(4106799..4107878) Shigella boydii Sb227 3783047 YP_410326.1 CDS dnaB NC_007613.1 4107931 4109346 R part of primosome; unwinds double stranded DNA; replicative DNA helicase complement(4107931..4109346) Shigella boydii Sb227 3783048 YP_410327.1 CDS qor NC_007613.1 4109429 4110412 D Code: CR; COG: COG0604; quinone oxidoreductase 4109429..4110412 Shigella boydii Sb227 3783049 YP_410328.2 CDS pspG NC_007613.1 4110577 4110819 R coordinately regulated along with pspA; PspF-dependent induction in response to secretin overexpression in Yersinia; phage shock protein G complement(4110577..4110819) Shigella boydii Sb227 3783050 YP_410329.1 CDS yjbN NC_007613.1 4110953 4111990 R Code: J; COG: COG0042; tRNA-dihydrouridine synthase A complement(4110953..4111990) Shigella boydii Sb227 3783051 YP_410330.1 CDS yjbM NC_007613.1 4112353 4113060 R hypothetical protein complement(4112353..4113060) Shigella boydii Sb227 3783052 YP_410331.1 CDS yjbL NC_007613.1 4113084 4113338 R hypothetical protein complement(4113084..4113338) Shigella boydii Sb227 3783053 YP_410332.2 CDS yjbK NC_007613.1 4113656 4114171 D Acts as a negative controlling element, employing Zn(2+) as a cofactor to bind the operator of the repressed genes znuACB; zinc uptake transcriptional repressor 4113656..4114171 Shigella boydii Sb227 3783054 YP_410333.1 CDS yjbJ NC_007613.1 4114213 4114422 R unknown function; highly abundant protein in vivo; overexpressed under high NaCl concentrations; part of the sigma S regulon; non-essential; stress-response protein complement(4114213..4114422) Shigella boydii Sb227 3783055 YP_410334.2 CDS dinF NC_007613.1 4114538 4115863 R Code: V; COG: COG0534; DNA-damage-inducible SOS response protein complement(4114538..4115863) Shigella boydii Sb227 3783056 YP_410335.1 CDS lexA NC_007613.1 4115936 4116544 R Represses a number of genes involved in the response to DNA damage; LexA repressor complement(4115936..4116544) Shigella boydii Sb227 3783057 YP_410336.1 CDS dgkA NC_007613.1 4116654 4117022 R Code: M; COG: COG0818; diacylglycerol kinase complement(4116654..4117022) Shigella boydii Sb227 3783058 YP_410337.2 CDS plsB NC_007613.1 4117193 4119616 D PlsB; catalyzes the formation of 1-acyl-sn-glycerol 3-phosphate by transfering the acyl moiety from acyl-CoA; glycerol-3-phosphate acyltransferase 4117193..4119616 Shigella boydii Sb227 3783059 YP_410338.1 CDS ubiA NC_007613.1 4119771 4120643 R catalyzes the conversion of 4-Hydroxybenzoate into 3-octaprenyl-4-hydroxybenzoate, as part of the ubiquinone biosynthesis pathway; 4-hydroxybenzoate octaprenyltransferase complement(4119771..4120643) Shigella boydii Sb227 3783060 YP_410339.2 CDS ubiC NC_007613.1 4120656 4121153 R catalyzes the formation of 4-hydroxybenzoate from chorismate; chorismate pyruvate lyase complement(4120656..4121153) Shigella boydii Sb227 3783061 YP_410340.1 CDS SBO_4079 NC_007613.1 4121697 4122824 D Code: L; COG: COG3547; transposase 4121697..4122824 Shigella boydii Sb227 3783062 YP_410341.1 CDS yjbI NC_007613.1 4123088 4124278 R Code: S; COG: COG1357; hypothetical protein complement(4123088..4124278) Shigella boydii Sb227 3783063 YP_410342.1 CDS SBO_4081 NC_007613.1 4124609 4124776 R IS1 encoded protein complement(4124609..4124776) Shigella boydii Sb227 3783064 YP_410343.1 CDS insB NC_007613.1 4124869 4125372 D Code: L; COG: COG1662; IS1 ORF2 4124869..4125372 Shigella boydii Sb227 3783065 YP_410344.1 CDS SBO_4083 NC_007613.1 4125448 4125951 R hypothetical protein complement(4125448..4125951) Shigella boydii Sb227 3783066 YP_410345.1 CDS aphA NC_007613.1 4126353 4127066 D Class B; non-specific; catalyzes the dephosphorylation of organic phosphomonoesters; also has phosphotransferase activity; acid phosphatase/phosphotransferase 4126353..4127066 Shigella boydii Sb227 3783067 YP_410346.1 CDS yjbQ NC_007613.1 4127177 4127593 D Code: S; COG: COG0432; hypothetical protein 4127177..4127593 Shigella boydii Sb227 3783068 YP_410347.1 CDS yjbR NC_007613.1 4127597 4127953 D Code: S; COG: COG2315; hypothetical protein 4127597..4127953 Shigella boydii Sb227 3783069 YP_410348.1 CDS uvrA NC_007613.1 4127988 4130810 R The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 uvrA and 2 uvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by uvrB, the uvrA molecules dissociate; excinuclease ABC subunit A complement(4127988..4130810) Shigella boydii Sb227 3783070 YP_410349.1 CDS ssb NC_007613.1 4131064 4131600 D binds to single stranded DNA and PriA helcase facilitate replication restart; single-stranded DNA-binding protein 4131064..4131600 Shigella boydii Sb227 3783071 YP_410350.1 CDS SBO_4089 NC_007613.1 4131701 4133017 R Code: L; COG: COG3385; IS4 orf complement(4131701..4133017) Shigella boydii Sb227 3783072 YP_410351.2 CDS SBO_4090 NC_007613.1 4133002 4133907 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(4133002..4133907) Shigella boydii Sb227 3783073 YP_410352.1 CDS SBO_4091 NC_007613.1 4133865 4134230 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(4133865..4134230) Shigella boydii Sb227 3783074 YP_410353.1 CDS yjcB NC_007613.1 4134474 4134824 R hypothetical protein complement(4134474..4134824) Shigella boydii Sb227 3783075 YP_410354.1 CDS SBO_4093 NC_007613.1 4135185 4135925 D hypothetical protein 4135185..4135925 Shigella boydii Sb227 3783076 YP_410355.1 CDS SBO_4094 NC_007613.1 4135907 4136077 R IS1 encoded protein complement(4135907..4136077) Shigella boydii Sb227 3783077 YP_410356.1 CDS insB NC_007613.1 4136170 4136673 D Code: L; COG: COG1662; IS1 ORF2 4136170..4136673 Shigella boydii Sb227 3783078 YP_410357.1 CDS yjcE NC_007613.1 4136726 4138375 D Code: P; COG: COG0025; hypothetical protein 4136726..4138375 Shigella boydii Sb227 3783079 YP_410358.1 CDS insB NC_007613.1 4139016 4139519 D Code: L; COG: COG1662; IS1 ORF2 4139016..4139519 Shigella boydii Sb227 3783080 YP_410359.1 CDS actP NC_007613.1 4139588 4141237 R member of the sodium:solute symporter family; cotranscribed with the acs gene which encodes acetyl coenzyme A synthase; mutations affect acetate uptake; acetate permease complement(4139588..4141237) Shigella boydii Sb227 3783081 YP_410360.1 CDS yjcH NC_007613.1 4141234 4141548 R Code: S; COG: COG3162; hypothetical protein complement(4141234..4141548) Shigella boydii Sb227 3783082 YP_410361.1 CDS nrfA NC_007613.1 4144032 4145468 D plays a role in nitrite reduction; catalyzes the formate-dependent reduction of nitrite to ammonia; cytochrome C552; cytochrome c552 4144032..4145468 Shigella boydii Sb227 3783084 YP_410362.1 CDS nrfB NC_007613.1 4145507 4146079 D part of nitrite reductase complex; NrfB is active at high nitrate conditions; NrfA, B, C, and D are essential for the formate-dependent nitrite reduction to ammonia; cytochrome c nitrite reductase pentaheme subunit 4145507..4146079 Shigella boydii Sb227 3783085 YP_410363.1 CDS nrfC NC_007613.1 4146076 4146747 D Code: C; COG: COG0437; formate-dependent nitrite reductase complex Fe-S centers 4146076..4146747 Shigella boydii Sb227 3783086 YP_410364.1 CDS nrfD NC_007613.1 4146744 4147700 D Code: P; COG: COG3301; formate-dependent nitrate reductase complex transmembrane protein 4146744..4147700 Shigella boydii Sb227 3783087 YP_410365.1 CDS nrfE NC_007613.1 4147780 4149438 D with NrfF and NrfG catalyzes the insertion of heme into cytochrome c552; heme lyase subunit NrfE 4147780..4149438 Shigella boydii Sb227 3783088 YP_410366.1 CDS nrfF NC_007613.1 4149431 4149814 D part of formate-dependent nitrite reductase complex; Code: O; COG: COG3088; formate-dependent nitrite reductase complex subunit NrfF 4149431..4149814 Shigella boydii Sb227 3783089 YP_410367.1 CDS nrfG NC_007613.1 4149811 4150407 D part of formate-dependent nitrite reductase complex; Code: O; COG: COG4235; formate-dependent nitrite reductase complex subunit NrfG 4149811..4150407 Shigella boydii Sb227 3783090 YP_410368.1 CDS gltP NC_007613.1 4150748 4152061 D carrier protein part of the Na(+)-independent, binding-protein-independent glutamate-aspartate transport system; glutamate/aspartate:proton symporter 4150748..4152061 Shigella boydii Sb227 3783091 YP_410369.2 CDS yjcQ NC_007613.1 4156841 4158892 R possibly part of a tripartite efflux system composed of MdtN, MdtO and MdtP which could be involved in resistance to puromycin, acriflavine and tetraphenylarsonium chloride; multidrug efflux system protein MdtO complement(4156841..4158892) Shigella boydii Sb227 3783095 YP_410370.1 CDS yjcR NC_007613.1 4158892 4159923 R with MdtO and MdtP is involved in resistance to puromycin, acriflavine and tetraphenylarsonium chloride; multidrug resistance protein MdtN complement(4158892..4159923) Shigella boydii Sb227 3783096 YP_410371.1 CDS SBO_4114 NC_007613.1 4159942 4160265 R formate dehydrogenase H complement(4159942..4160265) Shigella boydii Sb227 3783097 YP_410372.1 CDS yjcS NC_007613.1 4160426 4162423 R Code: Q; COG: COG2015; hypothetical protein complement(4160426..4162423) Shigella boydii Sb227 3783098 YP_410373.1 CDS rpiB NC_007613.1 4162664 4162981 D Code: G; COG: COG0698; ribose 5-phosphate isomerase B 4162664..4162981 Shigella boydii Sb227 3783099 YP_410374.1 CDS SBO_4117 NC_007613.1 4163050 4163379 D hypothetical protein 4163050..4163379 Shigella boydii Sb227 3783100 YP_410375.1 CDS phnP NC_007613.1 4163526 4164284 R required for the use of phosphonates and phosphite as phosphorus sources; carbon-phosphorus lyase complex accessory protein complement(4163526..4164284) Shigella boydii Sb227 3783101 YP_410376.1 CDS phnO NC_007613.1 4164286 4164735 R regulator, phn operon; PhnO in Salmonella enterica catalyzes the acetylation of a range of aminoalkylphosphonic acids; part of the biochemical pathway that enables the cell to use phosphonates as a phosphorus source; Escherichia coli uses a different mechanism of phosphonate catabolism where PhnO is not essential and seems to play a regulatory role; aminoalkylphosphonic acid N-acetyltransferase complement(4164286..4164735) Shigella boydii Sb227 3783102 YP_410377.1 CDS phnN NC_007613.1 4164722 4165279 R Code: P; COG: COG3709; ribose 1,5-bisphosphokinase complement(4164722..4165279) Shigella boydii Sb227 3783103 YP_410378.1 CDS phnM NC_007613.1 4165279 4166415 R phosphonate metabolism; Code: P; COG: COG3454; protein PhnM complement(4165279..4166415) Shigella boydii Sb227 3783104 YP_410379.1 CDS phnL NC_007613.1 4166412 4167092 R Code: P; COG: COG4778; phosphonate transport ATP-binding protein complement(4166412..4167092) Shigella boydii Sb227 3783105 YP_410380.1 CDS phnK NC_007613.1 4167203 4167961 R Code: P; COG: COG4107; phosphonate C-P lyase system protein PhnK complement(4167203..4167961) Shigella boydii Sb227 3783106 YP_410381.1 CDS phnJ NC_007613.1 4167958 4168803 R phosphonate metabolism; Code: P; COG: COG3627; protein PhnJ complement(4167958..4168803) Shigella boydii Sb227 3783107 YP_410382.1 CDS phnI NC_007613.1 4168796 4169854 R phosphonate metabolism; Code: P; COG: COG3626; protein PhnI complement(4168796..4169854) Shigella boydii Sb227 3783108 YP_410383.1 CDS phnH NC_007613.1 4169854 4170438 R phosphonate metabolism; Code: P; COG: COG3625; carbon-phosphorus lyase complex subunit complement(4169854..4170438) Shigella boydii Sb227 3783109 YP_410384.1 CDS phnG NC_007613.1 4170435 4170887 R phosphonate metabolism; Code: P; COG: COG3624; protein PhnG complement(4170435..4170887) Shigella boydii Sb227 3783110 YP_410385.1 CDS phnF NC_007613.1 4170888 4171613 R may be involved in phosphonate uptake and biodegradation; phosphonate metabolism transcriptional regulator PhnF complement(4170888..4171613) Shigella boydii Sb227 3783111 YP_410386.1 CDS phnE NC_007613.1 4171634 4172413 R Code: P; COG: COG3639; Pn transporter membrane channel protein complement(4171634..4172413) Shigella boydii Sb227 3783112 YP_410387.1 CDS phnD NC_007613.1 4172539 4173555 R Code: P; COG: COG3221; Pn transporter substrate binding protein complement(4172539..4173555) Shigella boydii Sb227 3783113 YP_410388.1 CDS phnC NC_007613.1 4173580 4174368 R Code: P; COG: COG3638; phosphonate/organophosphate ester transporter subunit complement(4173580..4174368) Shigella boydii Sb227 3783114 YP_410389.1 CDS phnB NC_007613.1 4174501 4174944 R Code: S; COG: COG2764; hypothetical protein complement(4174501..4174944) Shigella boydii Sb227 3783115 YP_410390.1 CDS phnA NC_007613.1 4175104 4175439 R Code: P; COG: COG2824; hypothetical protein complement(4175104..4175439) Shigella boydii Sb227 3783116 YP_410391.1 CDS SBO_4134 NC_007613.1 4175696 4175926 R IS1 encoded protein complement(4175696..4175926) Shigella boydii Sb227 3783117 YP_410392.1 CDS insB NC_007613.1 4176001 4176504 D Code: L; COG: COG1662; IS1 ORF2 4176001..4176504 Shigella boydii Sb227 3783118 YP_410393.1 CDS proP NC_007613.1 4179989 4181491 D Code: GEPR; COG: COG0477; proline/glycine betaine transporter 4179989..4181491 Shigella boydii Sb227 3783121 YP_410394.1 CDS basS NC_007613.1 4181670 4182770 R Code: T; COG: COG0642; sensor protein BasS/PmrB complement(4181670..4182770) Shigella boydii Sb227 3783122 YP_410395.1 CDS basR NC_007613.1 4182771 4183439 R member of 2-component regulatory system; response regulator in two-component regulatory system with BasS; DNA-binding transcriptional regulator BasR complement(4182771..4183439) Shigella boydii Sb227 3783123 YP_410396.1 CDS yjdB NC_007613.1 4183436 4185109 R with ZipA and an unidentified 24 kDa protein forms a complex involved in cell division; cell division protein complement(4183436..4185109) Shigella boydii Sb227 3783124 YP_410397.1 CDS yjdE NC_007613.1 4185183 4186520 R Code: E; COG: COG0531; arginine:agmatin antiporter complement(4185183..4186520) Shigella boydii Sb227 3783125 YP_410398.1 CDS adiY NC_007613.1 4186657 4187418 R Code: K; COG: COG2207; ARAC-type regulatory protein complement(4186657..4187418) Shigella boydii Sb227 3783126 YP_410399.1 CDS adiA NC_007613.1 4187743 4190013 R Code: E; COG: COG1982; biodegradative arginine decarboxylase complement(4187743..4190013) Shigella boydii Sb227 3783127 YP_410400.1 CDS melR NC_007613.1 4190209 4191117 R Code: K; COG: COG2207; DNA-binding transcriptional regulator MelR complement(4190209..4191117) Shigella boydii Sb227 3783128 YP_410401.1 CDS melA NC_007613.1 4191400 4192755 D Code: G; COG: COG1486; alpha-galactosidase 4191400..4192755 Shigella boydii Sb227 3783129 YP_410402.1 CDS SBO_4147 NC_007613.1 4193056 4193895 R Code: L; COG: COG2801; IS911 ORF2 complement(4193056..4193895) Shigella boydii Sb227 3783130 YP_410403.1 CDS SBO_4148 NC_007613.1 4194634 4195347 D Code: L; COG: COG2801; IS600 ORF2 4194634..4195347 Shigella boydii Sb227 3783131 YP_410404.2 CDS SBO_4149 NC_007613.1 4195863 4196624 D hypothetical protein 4195863..4196624 Shigella boydii Sb227 3783132 YP_410405.1 CDS sigA NC_007613.1 4196985 4200842 D serine protease 4196985..4200842 Shigella boydii Sb227 3783133 YP_410406.1 CDS SBO_4151 NC_007613.1 4201874 4202281 R protein encoded within IS complement(4201874..4202281) Shigella boydii Sb227 3783134 YP_410407.1 CDS SBO_4152 NC_007613.1 4202347 4202853 D hypothetical protein 4202347..4202853 Shigella boydii Sb227 3783135 YP_410408.1 CDS SBO_4153 NC_007613.1 4203113 4203388 D Code: L; COG: COG2963; IS629 ORF1 4203113..4203388 Shigella boydii Sb227 3783136 YP_410409.1 CDS SBO_4154 NC_007613.1 4203388 4204275 D Code: L; COG: COG2801; IS629 ORF2 4203388..4204275 Shigella boydii Sb227 3783137 YP_410410.1 CDS SBO_4155 NC_007613.1 4204259 4205164 D Code: L; COG: COG3436; protein in IS element 4204259..4205164 Shigella boydii Sb227 3783138 YP_410411.1 CDS SBO_4156 NC_007613.1 4205189 4205902 R Code: L; COG: COG2801; IS600 ORF2 complement(4205189..4205902) Shigella boydii Sb227 3783139 YP_410412.1 CDS SBO_4157 NC_007613.1 4206057 4206344 R Code: L; COG: COG2963; IS600 ORF1 complement(4206057..4206344) Shigella boydii Sb227 3783140 YP_410413.1 CDS SBO_4158 NC_007613.1 4206978 4210391 D Code: V; COG: COG4096; type I restriction enzyme R protein 4206978..4210391 Shigella boydii Sb227 3783141 YP_410414.1 CDS SBO_4159 NC_007613.1 4210455 4212089 D Code: V; COG: COG0286; type I restriction enzyme M protein 4210455..4212089 Shigella boydii Sb227 3783142 YP_410415.1 CDS SBO_4160 NC_007613.1 4212098 4213168 D type I restriction-modification system specificity subunit 4212098..4213168 Shigella boydii Sb227 3783143 YP_410416.1 CDS SBO_4161 NC_007613.1 4213293 4214075 R hypothetical protein complement(4213293..4214075) Shigella boydii Sb227 3783144 YP_410417.1 CDS insB NC_007613.1 4214077 4214580 R Code: L; COG: COG1662; IS1 ORF2 complement(4214077..4214580) Shigella boydii Sb227 3783145 YP_410418.1 CDS SBO_4163 NC_007613.1 4214803 4215099 R hypothetical protein complement(4214803..4215099) Shigella boydii Sb227 3783146 YP_410419.1 CDS intB NC_007613.1 4215530 4216723 R Code: L; COG: COG0582; prophage P4 integrase complement(4215530..4216723) Shigella boydii Sb227 3783147 YP_410420.1 CDS SBO_4165 NC_007613.1 4217557 4219890 R Code: R; COG: COG3378; DNA primase complement(4217557..4219890) Shigella boydii Sb227 3783148 YP_410421.1 CDS SBO_4166 NC_007613.1 4219905 4220225 R protein encoded in prophage complement(4219905..4220225) Shigella boydii Sb227 3783149 YP_410422.1 CDS SBO_4167 NC_007613.1 4220361 4220816 R hypothetical protein complement(4220361..4220816) Shigella boydii Sb227 3783150 YP_410423.1 CDS SBO_4168 NC_007613.1 4221089 4221688 R bacteriophage protein complement(4221089..4221688) Shigella boydii Sb227 3783151 YP_410424.1 CDS SBO_4169 NC_007613.1 4221685 4221951 R Code: K; COG: COG3311; hypothetical protein complement(4221685..4221951) Shigella boydii Sb227 3783152 YP_410425.1 CDS SBO_4170 NC_007613.1 4222503 4223237 D hypothetical protein 4222503..4223237 Shigella boydii Sb227 3783153 YP_410426.1 CDS SBO_4171 NC_007613.1 4223808 4224380 D phage polarity suppression protein 4223808..4224380 Shigella boydii Sb227 3783154 YP_410427.1 CDS SBO_4172 NC_007613.1 4224778 4225857 D hypothetical protein 4224778..4225857 Shigella boydii Sb227 3783155 YP_410428.1 CDS SBO_4173 NC_007613.1 4226402 4227355 D hypothetical protein 4226402..4227355 Shigella boydii Sb227 3783156 YP_410429.1 CDS SBO_4174 NC_007613.1 4227410 4228675 R Code: L; COG: COG0582; P4-type integrase complement(4227410..4228675) Shigella boydii Sb227 3783157 YP_410430.1 CDS yjgB NC_007613.1 4229065 4230126 D Code: R; COG: COG1064; oxidoreductase 4229065..4230126 Shigella boydii Sb227 3783159 YP_410431.1 CDS yjgR NC_007613.1 4230256 4231758 D Code: R; COG: COG0433; hypothetical protein 4230256..4231758 Shigella boydii Sb227 3783160 YP_410432.1 CDS yjgQ NC_007613.1 4231919 4233004 R Code: R; COG: COG0795; hypothetical protein complement(4231919..4233004) Shigella boydii Sb227 3783161 YP_410433.1 CDS yjgP NC_007613.1 4233001 4234101 R Code: R; COG: COG0795; hypothetical protein complement(4233001..4234101) Shigella boydii Sb227 3783162 YP_410434.1 CDS pepA NC_007613.1 4234368 4235879 D catalyzes the removal of N-terminal amino acids preferably leucine from various peptides; leucyl aminopeptidase 4234368..4235879 Shigella boydii Sb227 3783163 YP_410435.1 CDS holC NC_007613.1 4236039 4236482 D binds to single-strand binding (SSB) protein and acts as a bridge between the DnaX clamp loader complex and the SSB; DNA polymerase III subunit chi 4236039..4236482 Shigella boydii Sb227 3783164 YP_410436.1 CDS valS NC_007613.1 4236482 4239337 D valine--tRNA ligase; ValRS; converts valine ATP and tRNA(Val) to AMP PPi and valyl-tRNA(Val); class-I aminoacyl-tRNA synthetase type 1 subfamily; has a posttransfer editing process to hydrolyze mischarged Thr-tRNA(Val) which is done by the editing domain; valyl-tRNA synthetase 4236482..4239337 Shigella boydii Sb227 3783165 YP_410437.1 CDS SBO_4183 NC_007613.1 4239466 4239642 R IS1 encoded protein complement(4239466..4239642) Shigella boydii Sb227 3783166 YP_410438.1 CDS insB NC_007613.1 4239735 4240238 D Code: L; COG: COG1662; IS1 ORF2 4239735..4240238 Shigella boydii Sb227 3783167 YP_410439.1 CDS yjgN NC_007613.1 4240173 4241192 R Code: S; COG: COG4269; hypothetical protein complement(4240173..4241192) Shigella boydii Sb227 3783168 YP_410440.1 CDS insB NC_007613.1 4241194 4241697 R Code: L; COG: COG1662; IS1 ORF2 complement(4241194..4241697) Shigella boydii Sb227 3783169 YP_410441.1 CDS SBO_4187 NC_007613.1 4241811 4242452 D hypothetical protein 4241811..4242452 Shigella boydii Sb227 3783170 YP_410442.1 CDS argI NC_007613.1 4242524 4243528 R catalyzes the formation of L-citrulline from carbamoyl phosphate and L-ornithine in arginine biosynthesis and degradation; E. coli K12 has two genes, argF and argI, capable of producing functional ornithine carbamoyltransferase. When both are active in the same cell, the two gene products form a family of four hybrid trimeric isoenzymes designated, FFF, FFI, FII, and III.; ornithine carbamoyltransferase subunit I complement(4242524..4243528) Shigella boydii Sb227 3783171 YP_410443.1 CDS yjgD NC_007613.1 4243690 4244106 D Code: S; COG: COG3076; hypothetical protein 4243690..4244106 Shigella boydii Sb227 3783172 YP_410444.1 CDS yjgM NC_007613.1 4244259 4244654 R Code: KR; COG: COG0454; acetyltransferase complement(4244259..4244654) Shigella boydii Sb227 3783173 YP_410445.1 CDS SBO_4191 NC_007613.1 4244820 4245065 D hypothetical protein 4244820..4245065 Shigella boydii Sb227 3783174 YP_410446.1 CDS SBO_4192 NC_007613.1 4244985 4245218 R IS1 encoded protein complement(4244985..4245218) Shigella boydii Sb227 3783175 YP_410447.1 CDS insB NC_007613.1 4245293 4245796 D Code: L; COG: COG1662; IS1 ORF2 4245293..4245796 Shigella boydii Sb227 3783176 YP_410448.1 CDS SBO_4194 NC_007613.1 4246040 4246963 R hypothetical protein complement(4246040..4246963) Shigella boydii Sb227 3783177 YP_410449.1 CDS yjgK NC_007613.1 4247086 4247547 R Code: G; COG: COG2731; hypothetical protein complement(4247086..4247547) Shigella boydii Sb227 3783178 YP_410450.1 CDS yjgJ NC_007613.1 4247683 4247937 R hypothetical protein complement(4247683..4247937) Shigella boydii Sb227 3783179 YP_410451.1 CDS SBO_4197 NC_007613.1 4248009 4248173 R hypothetical protein complement(4248009..4248173) Shigella boydii Sb227 3783180 YP_410452.1 CDS yjgI NC_007613.1 4248347 4249060 D Code: IQR; COG: COG1028; oxidoreductase 4248347..4249060 Shigella boydii Sb227 3783181 YP_410453.1 CDS yjgH NC_007613.1 4249191 4249586 D Code: J; COG: COG0251; hypothetical protein 4249191..4249586 Shigella boydii Sb227 3783182 YP_410454.1 CDS pyrL NC_007613.1 4249866 4250000 D pyrBI operon leader peptide 4249866..4250000 Shigella boydii Sb227 3783183 YP_410455.1 CDS pyrB NC_007613.1 4250004 4250939 D catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis; aspartate carbamoyltransferase catalytic subunit 4250004..4250939 Shigella boydii Sb227 3783184 YP_410456.1 CDS pyrI NC_007613.1 4250952 4251413 D involved in the allosteric regulation of aspartate carbamoyltransferase; aspartate carbamoyltransferase regulatory subunit 4250952..4251413 Shigella boydii Sb227 3783185 YP_410457.1 CDS yjgF NC_007613.1 4251447 4251872 D Code: J; COG: COG0251; hypothetical protein 4251447..4251872 Shigella boydii Sb227 3783186 YP_410458.1 CDS mgtA NC_007613.1 4252078 4254774 R P-type 1; P-type ATPase involved in magnesium influx; magnesium-transporting ATPase MgtA complement(4252078..4254774) Shigella boydii Sb227 3783187 YP_410459.1 CDS treR NC_007613.1 4255153 4256118 D repressor of treA,B,C; regulates genes involved in trehalose metabolism; binds the intermediate trehalose-6-phosphate; binds a dimer; regulates treBC operon; trehalose repressor 4255153..4256118 Shigella boydii Sb227 3783188 YP_410460.1 CDS treB NC_007613.1 4256219 4257640 D phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system trehalose(maltose)-specific transporter subunit IIBC 4256219..4257640 Shigella boydii Sb227 3783189 YP_410461.1 CDS treC NC_007613.1 4257690 4259345 D Code: G; COG: COG0366; trehalose-6-phosphate hydrolase 4257690..4259345 Shigella boydii Sb227 3783190 YP_410462.1 CDS nrdD NC_007613.1 4259739 4261877 D Catalyzes the reduction of nucleoside 5'-triphosphates to 2'-deoxynucleoside 5'-triphosphates; anaerobic ribonucleoside triphosphate reductase 4259739..4261877 Shigella boydii Sb227 3783191 YP_410463.1 CDS nrdG NC_007613.1 4262067 4262531 D activates anaerobic ribonucleoside-triphosphate reductase under anaerobic conditions; anaerobic ribonucleotide reductase-activating protein 4262067..4262531 Shigella boydii Sb227 3783192 YP_410464.1 CDS cybC NC_007613.1 4262576 4262878 R Code: C; COG: COG3783; cytochrome b562 complement(4262576..4262878) Shigella boydii Sb227 3783193 YP_410465.1 CDS pmbA NC_007613.1 4263146 4264498 R maturation of antibiotic MccB17, see tld genes; protease involved in proteolytic processing of the antibiotic Microcin B17 and in sensitivity to the DNA gyrase inhibitor LetD; peptidase PmbA complement(4263146..4264498) Shigella boydii Sb227 3783194 YP_410466.1 CDS yjgA NC_007613.1 4264592 4265143 D Code: S; COG: COG3028; hypothetical protein 4264592..4265143 Shigella boydii Sb227 3783195 YP_410467.1 CDS yjfG NC_007613.1 4265226 4266599 R Code: M; COG: COG0773; ligase complement(4265226..4266599) Shigella boydii Sb227 3783196 YP_410468.1 CDS fbp NC_007613.1 4266775 4267773 D catalyzes the formation of D-fructose 6-phosphate from fructose-1,6-bisphosphate; fructose-1,6-bisphosphatase 4266775..4267773 Shigella boydii Sb227 3783197 YP_410469.1 CDS yjfF NC_007613.1 4267806 4268777 R membrane component of a sugar ABC transporter system; inner membrane ABC transporter permease YjfF complement(4267806..4268777) Shigella boydii Sb227 3783198 YP_410470.1 CDS ytfT NC_007613.1 4268788 4269813 R Code: G; COG: COG1172; transport system permease complement(4268788..4269813) Shigella boydii Sb227 3783199 YP_410471.1 CDS ytfQ NC_007613.1 4271466 4272422 R Code: G; COG: COG1879; LACI-type transcriptional regulator complement(4271466..4272422) Shigella boydii Sb227 3783201 YP_410472.1 CDS ppa NC_007613.1 4272732 4273262 D catalyzes the hydrolysis of pyrophosphate to phosphate; inorganic pyrophosphatase 4272732..4273262 Shigella boydii Sb227 3783202 YP_410473.2 CDS SBO_4220 NC_007613.1 4273853 4274758 D IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD 4273853..4274758 Shigella boydii Sb227 3783203 YP_410474.1 CDS ytfP NC_007613.1 4274961 4275302 R Code: S; COG: COG2105; hypothetical protein complement(4274961..4275302) Shigella boydii Sb227 3783204 YP_410475.1 CDS ytfN NC_007613.1 4275305 4279084 R Code: S; COG: COG2911; hypothetical protein complement(4275305..4279084) Shigella boydii Sb227 3783205 YP_410476.1 CDS ytfM NC_007613.1 4279081 4280814 R Code: M; COG: COG0729; hypothetical protein complement(4279081..4280814) Shigella boydii Sb227 3783206 YP_410477.1 CDS msrA NC_007613.1 4281020 4281658 D this stereospecific enzymes reduces the S isomer of methionine sulfoxide while MsrB reduces the R form; provides protection against oxidative stress; methionine sulfoxide reductase A 4281020..4281658 Shigella boydii Sb227 3783207 YP_410478.1 CDS ytfL NC_007613.1 4281981 4283324 D Code: R; COG: COG1253; transporter 4281981..4283324 Shigella boydii Sb227 3783208 YP_410479.1 CDS ytfK NC_007613.1 4283386 4283631 R hypothetical protein complement(4283386..4283631) Shigella boydii Sb227 3783209 YP_410480.1 CDS ytfJ NC_007613.1 4283917 4284471 D Code: R; COG: COG3054; hypothetical protein 4283917..4284471 Shigella boydii Sb227 3783210 YP_410481.1 CDS ytfI NC_007613.1 4284561 4285472 R hypothetical protein complement(4284561..4285472) Shigella boydii Sb227 3783211 YP_410482.1 CDS cysQ NC_007613.1 4285684 4286424 R affects pool of 3'-phosphoadenosine-5'-phosphosulfate in pathway of sulfite synthesis; catalyzes the formation of AMP from adenosine-3',5'-bisphosphate; adenosine-3'(2'),5'-bisphosphate nucleotidase complement(4285684..4286424) Shigella boydii Sb227 3783212 YP_410483.1 CDS cpdB NC_007613.1 4286614 4288557 D periplasmic enzyme; functions during ribonucleic acid degradation; 2',3'-cyclic nucleotides are first converted to 3'-nucleotide and then cleaved to yield a ribonucleotide and a phosphate; bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic protein 4286614..4288557 Shigella boydii Sb227 3783213 YP_410484.1 CDS ytfH NC_007613.1 4288686 4289156 R Code: K; COG: COG1733; hypothetical protein complement(4288686..4289156) Shigella boydii Sb227 3783215 YP_410485.1 CDS ytfG NC_007613.1 4289155 4290015 D Code: MG; COG: COG0702; oxidoreductase 4289155..4290015 Shigella boydii Sb227 3783214 YP_410486.1 CDS ytfF NC_007613.1 4290114 4291088 D Code: GER; COG: COG0697; transmembrane subunit 4290114..4291088 Shigella boydii Sb227 3783216 YP_410487.1 CDS ytfE NC_007613.1 4291196 4291858 D Involved in anaerobic NO protection and iron metabolism; iron-sulfur cluster repair di-iron protein 4291196..4291858 Shigella boydii Sb227 3783217 YP_410488.1 CDS cycA NC_007613.1 4291903 4293315 R transport of D-alanine, D-serine, and glycine; involved in the transport across the cytoplasmic membrane of D-alanine, D-serine and glycine; D-alanine/D-serine/glycine permease complement(4291903..4293315) Shigella boydii Sb227 3783218 YP_410489.1 CDS insB NC_007613.1 4294387 4294890 R Code: L; COG: COG1662; IS1 ORF2 complement(4294387..4294890) Shigella boydii Sb227 3783219 YP_410490.1 CDS SBO_4237 NC_007613.1 4294983 4295183 D IS1 encoded protein 4294983..4295183 Shigella boydii Sb227 3783220 YP_410491.1 CDS ytfB NC_007613.1 4295204 4295878 D Code: M; COG: COG3061; hypothetical protein 4295204..4295878 Shigella boydii Sb227 3783222 YP_410492.1 CDS ytfA NC_007613.1 4295862 4296188 R Code: K; COG: COG1309; hypothetical protein complement(4295862..4296188) Shigella boydii Sb227 3783223 YP_410493.2 CDS SBO_4241 NC_007613.1 4296721 4297512 D catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-ACP reductase 4296721..4297512 Shigella boydii Sb227 3783224 YP_410494.1 CDS SBO_4242 NC_007613.1 4297522 4298364 D Code: G; COG: COG1082; hypothetical protein 4297522..4298364 Shigella boydii Sb227 3783225 YP_410495.1 CDS SBO_4243 NC_007613.1 4298374 4299150 D Code: I; COG: COG1024; hypothetical protein 4298374..4299150 Shigella boydii Sb227 3783226 YP_410496.1 CDS SBO_4244 NC_007613.1 4299160 4300701 D Code: I; COG: COG4670; hypothetical protein 4299160..4300701 Shigella boydii Sb227 3783227 YP_410497.1 CDS insB NC_007613.1 4302995 4303498 D Code: L; COG: COG1662; IS1 ORF2 4302995..4303498 Shigella boydii Sb227 3783229 YP_410498.1 CDS SBO_4247 NC_007613.1 4303639 4304889 D Code: GEPR; COG: COG0477; hexuronates transport protein 4303639..4304889 Shigella boydii Sb227 3783230 YP_410499.1 CDS insB NC_007613.1 4304883 4305386 R Code: L; COG: COG1662; IS1 ORF2 complement(4304883..4305386) Shigella boydii Sb227 3783231 YP_410500.1 CDS SBO_4249 NC_007613.1 4305461 4305724 D IS1 encoded protein 4305461..4305724 Shigella boydii Sb227 3783232 YP_410501.1 CDS SBO_4250 NC_007613.1 4305828 4306385 D hypothetical protein 4305828..4306385 Shigella boydii Sb227 3783233 YP_410502.1 CDS rplI NC_007613.1 4306456 4306905 R in Escherichia coli this protein is wrapped around the base of the L1 stalk; 50S ribosomal protein L9 complement(4306456..4306905) Shigella boydii Sb227 3783234 YP_410503.1 CDS rpsR NC_007613.1 4306947 4307174 R binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit; 30S ribosomal protein S18 complement(4306947..4307174) Shigella boydii Sb227 3783235 YP_410504.1 CDS priB NC_007613.1 4307179 4307493 R binds single-stranded DNA at the primosome assembly site; primosomal replication protein N complement(4307179..4307493) Shigella boydii Sb227 3783236 YP_410505.1 CDS rpsF NC_007613.1 4307500 4307895 R binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21; 30S ribosomal protein S6 complement(4307500..4307895) Shigella boydii Sb227 3783237 YP_410506.1 CDS yjfY NC_007613.1 4308222 4308497 D hypothetical protein 4308222..4308497 Shigella boydii Sb227 3783238 YP_410507.1 CDS yagU NC_007613.1 4308572 4309123 R Code: S; COG: COG3477; hypothetical protein complement(4308572..4309123) Shigella boydii Sb227 3783239 YP_410508.1 CDS sgaU NC_007613.1 4309906 4310760 R UlaE; catalyzes the epimerization of L-ribulose-5-phosphate into L-xylulose-5-phosphate; part of the anaerobic L-ascorbate degradation pathway; L-xylulose 5-phosphate 3-epimerase complement(4309906..4310760) Shigella boydii Sb227 3783241 YP_410509.1 CDS ulaD NC_007613.1 4310770 4311420 R catalyzes the formation of L-xylulose-5-phosphate from 3-keto-L-gulonate-6-phosphate in anaerobic L-ascorbate utilization; 3-keto-L-gulonate-6-phosphate decarboxylase complement(4310770..4311420) Shigella boydii Sb227 3783242 YP_410510.1 CDS ptxA NC_007613.1 4311434 4311898 R involved in the phosphorylation and transport of sugars across the cell membrane; protein IIA transfers a phosphoryl group to IIB which then transfers the phosphoryl group to the sugar; IIC forms the translocation channel for the sugar uptake; PTS system L-ascorbate-specific transporter subunit IIA complement(4311434..4311898) Shigella boydii Sb227 3783243 YP_410511.1 CDS sgaB NC_007613.1 4311908 4312213 R involved in the phosphorylation and transport of sugars across the cell membrane; protein IIA transfers a phosphoryl group to IIB which then transfers the phosphoryl group to the sugar; IIC forms the translocation channel for the sugar uptake; PTS system L-ascorbate-specific transporter subunit IIB complement(4311908..4312213) Shigella boydii Sb227 3783244 YP_410512.2 CDS ulaA NC_007613.1 4312229 4313677 R membrane component; functions with enzymes IIB (sgaB; ulaB) and IIA (sgaA; ulaC) enzyme I and HPr for anaerobic utilization and uptake of L-ascorbate; sgaTBA are regulated by yifQ as well as Crp and Fnr; PTS system ascorbate-specific transporter subunit IIC complement(4312229..4313677) Shigella boydii Sb227 3783245 YP_410513.1 CDS yjfR NC_007613.1 4313975 4315045 D Code: R; COG: COG2220; L-ascorbate 6-phosphate lactonase 4313975..4315045 Shigella boydii Sb227 3783246 YP_410514.1 CDS yjfQ NC_007613.1 4315153 4315908 D negative regulator of ulaG and ulaABCDEF; transcriptional repressor UlaR 4315153..4315908 Shigella boydii Sb227 3783247 YP_410515.1 CDS yjfP NC_007613.1 4315905 4316654 R YjfP; esterase activity towards palmitoyl-CoA and pNP-butyrate in vitro; unknown function and substrate in vivo; esterase complement(4315905..4316654) Shigella boydii Sb227 3783248 YP_410516.2 CDS yjfO NC_007613.1 4316836 4317165 D in Escherichia coli, mutation of this gene affects biofilm maturation, stress response, and motility; biofilm stress and motility protein A 4316836..4317165 Shigella boydii Sb227 3783249 YP_410517.1 CDS yjfN NC_007613.1 4317287 4317589 D hypothetical protein 4317287..4317589 Shigella boydii Sb227 3783250 YP_410518.1 CDS aidB NC_007613.1 4317706 4319346 R catalyzes the formation of 3-methylcrotonyl-CoA from isovaleryl-CoA; isovaleryl CoA dehydrogenase complement(4317706..4319346) Shigella boydii Sb227 3783251 YP_410519.1 CDS yjfC NC_007613.1 4319415 4320473 R Code: E; COG: COG0754; synthetase/amidase complement(4319415..4320473) Shigella boydii Sb227 3783252 YP_410520.1 CDS yjfM NC_007613.1 4320476 4321114 R Code: S; COG: COG5463; hypothetical protein complement(4320476..4321114) Shigella boydii Sb227 3783253 YP_410521.1 CDS yjfL NC_007613.1 4321124 4321522 R Code: S; COG: COG3766; hypothetical protein complement(4321124..4321522) Shigella boydii Sb227 3783254 YP_410522.1 CDS yjfK NC_007613.1 4321540 4322199 R hypothetical protein complement(4321540..4322199) Shigella boydii Sb227 3783255 YP_410523.1 CDS yjfJ NC_007613.1 4322250 4322948 R Code: KT; COG: COG1842; alpha helical protein complement(4322250..4322948) Shigella boydii Sb227 3783256 YP_410524.1 CDS SBO_4274 NC_007613.1 4323058 4323306 R IS1 encoded protein complement(4323058..4323306) Shigella boydii Sb227 3783257 YP_410525.1 CDS insB NC_007613.1 4323399 4323902 D Code: L; COG: COG1662; IS1 ORF2 4323399..4323902 Shigella boydii Sb227 3783258 YP_410526.1 CDS yjfH NC_007613.1 4324272 4325003 R Specifically methylates the ribose of guanosine 2251 in 23S rRNA; 23S rRNA (guanosine-2'-O-)-methyltransferase complement(4324272..4325003) Shigella boydii Sb227 3783259 YP_410527.2 CDS vacB NC_007613.1 4325184 4327625 R 3'-5'exoribonuclease that acts nonspecifically on poly(A), poly(U) and ribosomal RNAs; exoribonuclease R complement(4325184..4327625) Shigella boydii Sb227 3783260 YP_410528.1 CDS yjeB NC_007613.1 4327664 4328089 R negatively regulates the transcription of genes upregulated by nitrosative stress; transcriptional repressor NsrR complement(4327664..4328089) Shigella boydii Sb227 3783261 YP_410529.1 CDS purA NC_007613.1 4328294 4329592 R catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis; adenylosuccinate synthetase complement(4328294..4329592) Shigella boydii Sb227 3783262 YP_410530.1 CDS yjeT NC_007613.1 4329696 4329893 R Code: S; COG: COG3242; hypothetical protein complement(4329696..4329893) Shigella boydii Sb227 3783263 YP_410531.1 CDS hflC NC_007613.1 4329975 4330979 R with HflK inhibits proteolysis of lambda cII protein by FtsH; FtsH protease regulator HflC complement(4329975..4330979) Shigella boydii Sb227 3783264 YP_410532.1 CDS hflK NC_007613.1 4330982 4332241 R with HflC inhibits proteolysis of lambda cII protein by FtsH; FtsH protease regulator HflK complement(4330982..4332241) Shigella boydii Sb227 3783265 YP_410533.1 CDS hflX NC_007613.1 4332327 4333607 R specific for phage lambda cII repressor; involved in modulation of proteins HflK and HflC; part of the hflA locus (high frequency of lysogenization) which governs the lysis-lysogeny decision of bacteriophage lambda by controlling stability of the phage cII protein; GTPase HflX complement(4332327..4333607) Shigella boydii Sb227 3783266 YP_410534.1 CDS hfq NC_007613.1 4333684 4333992 R a growth-related protein; Stimulates the elongation of poly(A) tails; RNA-binding protein Hfq complement(4333684..4333992) Shigella boydii Sb227 3783267 YP_410535.1 CDS miaA NC_007613.1 4334078 4335028 R IPP transferase; isopentenyltransferase; involved in tRNA modification; in Escherichia coli this enzyme catalyzes the addition of a delta2-isopentenyl group from dimethylallyl diphosphate to the N6-nitrogen of adenosine adjacent to the anticodon of tRNA species that read codons starting with uracil; further tRNA modifications may occur; mutations in miaA result in defects in translation efficiency and fidelity; tRNA delta(2)-isopentenylpyrophosphate transferase complement(4334078..4335028) Shigella boydii Sb227 3783268 YP_410536.1 CDS mutL NC_007613.1 4335021 4336868 R This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. Promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex; DNA mismatch repair protein complement(4335021..4336868) Shigella boydii Sb227 3783269 YP_410537.1 CDS amiB NC_007613.1 4336878 4338215 R a murein hydrolase; Code: M; COG: COG0860; N-acetylmuramoyl-l-alanine amidase II complement(4336878..4338215) Shigella boydii Sb227 3783270 YP_410538.1 CDS yjeE NC_007613.1 4338234 4338695 R possibly involved in cell wall synthesis; ATPase complement(4338234..4338695) Shigella boydii Sb227 3783271 YP_410539.1 CDS yjeF NC_007613.1 4338667 4340214 R Code: G; COG: COG0063; hypothetical protein complement(4338667..4340214) Shigella boydii Sb227 3783273 YP_410540.1 CDS yjeS NC_007613.1 4340213 4341352 D Code: C; COG: COG1600; hypothetical protein 4340213..4341352 Shigella boydii Sb227 3783272 YP_410541.2 CDS yjeR NC_007613.1 4342363 4342908 R 3'-5' exoribonuclease specific for small oligoribonuclotides; oligoribonuclease complement(4342363..4342908) Shigella boydii Sb227 3783278 YP_410542.2 CDS yjeQ NC_007613.1 4343003 4344055 D EngC; RsgA; CpgA; circularly permuted GTPase; ribosome small subunit-dependent GTPase A; has the pattern G4-G1-G3 as opposed to other GTPases; interacts strongly with 30S ribosome which stimulates GTPase activity; ribosome-associated GTPase 4343003..4344055 Shigella boydii Sb227 3783279 YP_410543.1 CDS psd NC_007613.1 4344152 4345120 D phospholipid synthesis; catalyzes the decarboxylation of phosphatidyl-L-serine to phosphatidylethanoleamine; phosphatidylserine decarboxylase 4344152..4345120 Shigella boydii Sb227 3783280 YP_410544.1 CDS yjeP NC_007613.1 4345142 4348465 D Code: M; COG: COG3264; hypothetical protein 4345142..4348465 Shigella boydii Sb227 3783281 YP_410545.1 CDS insB NC_007613.1 4348932 4349435 R Code: L; COG: COG1662; IS1 ORF2 complement(4348932..4349435) Shigella boydii Sb227 3783282 YP_410546.2 CDS yjeA NC_007613.1 4350471 4351448 R lysine--tRNA ligase beta chain; poxA; class II aminoacyl tRNA synthetase; catalyzes a two-step reaction; first charging a lysine molecule by linking the carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA; lysyl-tRNA synthetase complement(4350471..4351448) Shigella boydii Sb227 3783284 YP_410547.1 CDS frdA NC_007613.1 4351773 4353581 D part of four member fumarate reductase enzyme complex FrdABCD which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdCD are the membrane components which interact with quinone and are involved in electron transfer; the catalytic subunits are similar to succinate dehydrogenase SdhAB; fumarate reductase flavoprotein subunit 4351773..4353581 Shigella boydii Sb227 3783285 YP_410548.1 CDS frdB NC_007613.1 4353574 4354308 D part of four member fumarate reductase enzyme complex FrdABCD which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdCD are the membrane components which interact with quinone and are involved in electron transfer; the catalytic subunits are similar to succinate dehydrogenase SdhAB; fumarate reductase iron-sulfur subunit 4353574..4354308 Shigella boydii Sb227 3783286 YP_410549.1 CDS frdC NC_007613.1 4354319 4354714 D part of four member fumarate reductase enzyme complex FrdABCD which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdCD are the membrane components which interact with quinone and are involved in electron transfer; the catalytic subunits are similar to succinate dehydrogenase SdhAB; fumarate reductase subunit C 4354319..4354714 Shigella boydii Sb227 3783287 YP_410550.1 CDS frdD NC_007613.1 4354725 4355084 D in conjunction with FrdC acts to anchor the catalytic components of the fumarate reductase to the cytoplasmic membrane; fumarate reductase subunit D 4354725..4355084 Shigella boydii Sb227 3783288 YP_410551.1 CDS ampC NC_007613.1 4355147 4356280 D penicillin resistance; Code: V; COG: COG1680; beta-lactamase 4355147..4356280 Shigella boydii Sb227 3783289 YP_410552.1 CDS blc NC_007613.1 4356369 4356902 D lipocalin; lipocalin; globomycin-sensitive outer membrane lipoprotein; outer membrane lipoprotein Blc 4356369..4356902 Shigella boydii Sb227 3783290 YP_410553.1 CDS sugE NC_007613.1 4356899 4357366 R suppresses groEL, may be chaperone; Code: P; COG: COG2076; SugE protein complement(4356899..4357366) Shigella boydii Sb227 3783291 YP_410554.1 CDS efp NC_007613.1 4357832 4358398 R EF-P; Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA; elongation factor P complement(4357832..4358398) Shigella boydii Sb227 3783292 YP_410555.1 CDS yjeK NC_007613.1 4358440 4359489 D Code: E; COG: COG1509; hypothetical protein 4358440..4359489 Shigella boydii Sb227 3783293 YP_410556.1 CDS yjeJ NC_007613.1 4359863 4360732 D hypothetical protein 4359863..4360732 Shigella boydii Sb227 3783294 YP_410557.1 CDS yjeI NC_007613.1 4360935 4361321 R hypothetical protein complement(4360935..4361321) Shigella boydii Sb227 3783295 YP_410558.1 CDS groEL NC_007613.1 4361426 4363072 R chaperone Hsp60; peptide-dependent ATPase; heat shock protein; 60 kDa chaperone family; promotes refolding of misfolded polypeptides especially under stressful conditions; forms two stacked rings of heptamers to form a barrel-shaped 14mer; ends can be capped by GroES; misfolded proteins enter the barrel where they are refolded when GroES binds; many bacteria have multiple copies of the groEL gene which are active under different environmental conditions; the B.japonicum protein in this cluster is expressed constitutively; in Rhodobacter, Corynebacterium and Rhizobium this protein is essential for growth; chaperonin GroEL complement(4361426..4363072) Shigella boydii Sb227 3783296 YP_410559.1 CDS groES NC_007613.1 4363116 4363409 R 10 kDa chaperone binds to Hsp60 in preence of. Mg-ATP, suppressing its ATPase activity; 10 kDa chaperonin; Cpn10; GroES; forms homoheptameric ring; binds to one or both ends of the GroEL double barrel in the presence of adenine nucleotides capping it; folding of unfolded substrates initiates in a GroEL-substrate bound and capped by GroES; release of the folded substrate is dependent on ATP binding and hydrolysis in the trans ring; co-chaperonin GroES complement(4363116..4363409) Shigella boydii Sb227 3783297 YP_410560.1 CDS yjeH NC_007613.1 4363685 4364941 D uncharacterized member of the APC superfamily of amino acid transporters; unknown function; inner membrane protein YjeH 4363685..4364941 Shigella boydii Sb227 3783298 YP_410561.1 CDS fxsA NC_007613.1 4364957 4365433 R F exclusion of bacteriophage T7; overproduction of this protein in Escherichia coli inhibits the F plasmid-mediated exclusion of bacteriophage T7; interacts with the F plasmid-encoded PifA protein; inner membrane protein; FxsA protein complement(4364957..4365433) Shigella boydii Sb227 3783299 YP_410562.1 CDS aspA NC_007613.1 4365725 4367206 D aspartase; catalyzes the formation of fumarate from aspartate; aspartate ammonia-lyase 4365725..4367206 Shigella boydii Sb227 3783300 YP_410563.1 CDS dcuA NC_007613.1 4367324 4368625 D functions in anaerobic transport of C4-dicarboxylate compounds such as fumarate; similar to dcuB; anaerobic C4-dicarboxylate transporter 4367324..4368625 Shigella boydii Sb227 3783301 YP_410564.1 CDS dipZ NC_007613.1 4369056 4370753 D copper tolerance; two electrons are transferred from cytoplasmic NADPH to thioredoxin and then to the inner membrane protein DsbD which keeps the disulfide isomerase DsbC in a reduced state in the oxidizing periplasm; DsbC in turns rearranges incorrectly made disulfide bonds in the periplasm; thiol:disulfide interchange protein 4369056..4370753 Shigella boydii Sb227 3783302 YP_410565.1 CDS yjdC NC_007613.1 4370790 4371365 D Code: K; COG: COG1309; transcriptional regulator 4370790..4371365 Shigella boydii Sb227 3783303 YP_410566.1 CDS SBO_4322 NC_007613.1 4371745 4372749 D Code: L; COG: COG0582; P4-type integrase 4371745..4372749 Shigella boydii Sb227 3783305 YP_410567.1 CDS SBO_4323 NC_007613.1 4372800 4373255 R hypothetical protein complement(4372800..4373255) Shigella boydii Sb227 3783306 YP_410568.1 CDS SBO_4324 NC_007613.1 4373153 4374175 R Code: L; COG: COG2801; IS911 ORF2 complement(4373153..4374175) Shigella boydii Sb227 3783307 YP_410569.1 CDS yjdF NC_007613.1 4374980 4375609 R Code: S; COG: COG3647; hypothetical protein complement(4374980..4375609) Shigella boydii Sb227 3783308 YP_410570.1 CDS fumB NC_007613.1 4375732 4377378 R fumarate hydratase Class I; anaerobic isozyme; Code: C; COG: COG1951; fumarase B complement(4375732..4377378) Shigella boydii Sb227 3783309 YP_410571.1 CDS dcuB NC_007613.1 4377456 4378796 R functions in anaerobic transport of C4-dicarboxylate compounds such as fumarate; similar to DcuA; DcuA and DcuB function as independent and mutually redundant C4-dicarboxylate (aspartate, malate, fumarate and succinate) transporters; anaerobic C4-dicarboxylate transporter complement(4377456..4378796) Shigella boydii Sb227 3783310 YP_410572.1 CDS yjdG NC_007613.1 4379367 4380086 R response regulator in two-component regulatory system with DcuS; phosphorylated DcuR activates transcription of genes involved in anaerobic fumarate respiration; DNA-binding transcriptional activator DcuR complement(4379367..4380086) Shigella boydii Sb227 3783311 YP_410573.1 CDS yjdH NC_007613.1 4380083 4381714 R C4-dicarboxylate-sensing histidine kinase; part of two-component regulatory system with DcuR; regulates anaerobic fumarate respiration; sensory histidine kinase DcuS complement(4380083..4381714) Shigella boydii Sb227 3783312 YP_410574.1 CDS yjdI NC_007613.1 4381895 4382125 D Code: S; COG: COG3592; hypothetical protein 4381895..4382125 Shigella boydii Sb227 3783313 YP_410575.1 CDS yjdJ NC_007613.1 4382137 4382409 D Code: R; COG: COG2388; hypothetical protein 4382137..4382409 Shigella boydii Sb227 3783314 YP_410576.1 CDS SBO_4332 NC_007613.1 4382692 4382889 R IS1 encoded protein complement(4382692..4382889) Shigella boydii Sb227 3783315 YP_410577.1 CDS insB NC_007613.1 4382982 4383485 D Code: L; COG: COG1662; IS1 ORF2 4382982..4383485 Shigella boydii Sb227 3783316 YP_410578.2 CDS SBO_4334 NC_007613.1 4383545 4384450 R IS2 OrfB; forms an overlapping reading frame with orfA; may form a fusion protein OrfAB due to ribosomal frameshifting; in some cases OrfB is itself expressed; both OrfA and OrfAB bind terminal inverted repeats; insertion element IS2 transposase InsD complement(4383545..4384450) Shigella boydii Sb227 3783317 YP_410579.1 CDS SBO_4335 NC_007613.1 4384730 4385323 D hypothetical protein 4384730..4385323 Shigella boydii Sb227 3783318 YP_410580.1 CDS imm NC_007613.1 4385273 4386466 R Code: GEPR; COG: COG0477; membrane transport protein complement(4385273..4386466) Shigella boydii Sb227 3783319 YP_410581.1 CDS iucA NC_007613.1 4386545 4388326 D siderophore biosynthesis protein 4386545..4388326 Shigella boydii Sb227 3783320 YP_410582.1 CDS iucB NC_007613.1 4388327 4389274 D Code: J; COG: COG1670; siderophore biosynthesis protein 4388327..4389274 Shigella boydii Sb227 3783321 YP_410583.1 CDS iucC NC_007613.1 4389274 4391016 D Code: Q; COG: COG4264; siderophore biosynthesis protein 4389274..4391016 Shigella boydii Sb227 3783322 YP_410584.1 CDS iucD NC_007613.1 4391013 4392350 D Code: Q; COG: COG3486; lysine:N6-hydroxylase 4391013..4392350 Shigella boydii Sb227 3783323 YP_410585.1 CDS iutA NC_007613.1 4392353 4394551 D Code: P; COG: COG1629; ferric siderophore receptor 4392353..4394551 Shigella boydii Sb227 3783324 YP_410586.1 CDS SBO_4342 NC_007613.1 4394856 4395851 R Code: L; COG: COG3436; protein encoded within IS complement(4394856..4395851) Shigella boydii Sb227 3783325 YP_410587.1 CDS SBO_4344 NC_007613.1 4395921 4396259 R protein encoded within IS complement(4395921..4396259) Shigella boydii Sb227 3783327 YP_410588.1 CDS SBO_4343 NC_007613.1 4396113 4396727 D hypothetical protein 4396113..4396727 Shigella boydii Sb227 3783326 YP_410589.1 CDS SBO_4345 NC_007613.1 4396830 4397105 D Code: L; COG: COG2963; IS629 ORF1 4396830..4397105 Shigella boydii Sb227 3783328 YP_410590.1 CDS SBO_4346 NC_007613.1 4397105 4397992 D Code: L; COG: COG2801; IS629 ORF2 4397105..4397992 Shigella boydii Sb227 3783329 YP_410591.1 CDS SBO_4347 NC_007613.1 4399357 4399566 R IS1 encoded protein complement(4399357..4399566) Shigella boydii Sb227 3783330 YP_410592.1 CDS insB NC_007613.1 4399641 4400144 D Code: L; COG: COG1662; IS1 ORF2 4399641..4400144 Shigella boydii Sb227 3783331 YP_410593.1 CDS SBO_4349 NC_007613.1 4401388 4401717 R IS2 ORF2 complement(4401388..4401717) Shigella boydii Sb227 3783332 YP_410594.1 CDS SBO_4350 NC_007613.1 4401705 4402226 R IS2 ORF2 complement(4401705..4402226) Shigella boydii Sb227 3783333 YP_410595.1 CDS SBO_4351 NC_007613.1 4402250 4402615 R IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein complement(4402250..4402615) Shigella boydii Sb227 3783334 YP_410596.1 CDS SBO_4352 NC_007613.1 4403070 4405160 D IrgA-homologue adhesin (Iha); TonB-dependent; acts as a specific receptor of enterobactin; fur-regulated; urovirulence factor; bifunctional enterobactin receptor/adhesin protein 4403070..4405160 Shigella boydii Sb227 3783335 YP_410597.1 CDS SBO_4353 NC_007613.1 4405394 4405618 D hypothetical protein 4405394..4405618 Shigella boydii Sb227 3783336 YP_410598.1 CDS SBO_4354 NC_007613.1 4406287 4407126 D Code: L; COG: COG2801; IS911 ORF2 4406287..4407126 Shigella boydii Sb227 3783337 YP_410599.1 CDS SBO_4355 NC_007613.1 4407120 4407602 D hypothetical protein 4407120..4407602 Shigella boydii Sb227 3783338 YP_410600.1 CDS SBO_4356 NC_007613.1 4408155 4408331 R IS1-encoded protein complement(4408155..4408331) Shigella boydii Sb227 3783339 YP_410601.1 CDS insB NC_007613.1 4408424 4408927 D Code: L; COG: COG1662; IS1 ORF2 4408424..4408927 Shigella boydii Sb227 3783340 YP_410602.1 CDS SBO_4358 NC_007613.1 4409316 4410188 R Code: V; COG: COG3440; hypothetical protein complement(4409316..4410188) Shigella boydii Sb227 3783341 YP_410603.1 CDS yjhS NC_007613.1 4410400 4411380 R Code: L; COG: COG2801; hypothetical protein complement(4410400..4411380) Shigella boydii Sb227 3783342 YP_410604.1 CDS yjhT NC_007613.1 4411445 4412659 R Code: S; COG: COG3055; N-acetylneuraminic acid mutarotase complement(4411445..4412659) Shigella boydii Sb227 3783343 YP_410605.1 CDS yjhA NC_007613.1 4412571 4413296 R hypothetical protein complement(4412571..4413296) Shigella boydii Sb227 3783344 YP_410606.1 CDS fimB NC_007613.1 4414743 4415345 D recombinase involved in phase variation; regulator for fimA; inversion of on/off regulator of fimA; tyrosine recombinase 4414743..4415345 Shigella boydii Sb227 3783345 YP_410607.1 CDS fimE NC_007613.1 4415823 4416419 D recombinase involved in phase variation; regulator for fimA; inversion of on/off regulator of fimA; tyrosine recombinase 4415823..4416419 Shigella boydii Sb227 3783346 YP_410608.1 CDS fimA NC_007613.1 4416896 4417444 D pilin; Code: NU; COG: COG3539; major type 1 subunit fimbrin 4416896..4417444 Shigella boydii Sb227 3783347 YP_410609.1 CDS fimI NC_007613.1 4417410 4418048 D Code: NU; COG: COG3539; fimbrial protein 4417410..4418048 Shigella boydii Sb227 3783348 YP_410610.1 CDS fimC NC_007613.1 4418085 4418810 D required for type 1 fimbriae; Code: NU; COG: COG3121; periplasmic chaperone 4418085..4418810 Shigella boydii Sb227 3783349 YP_410611.1 CDS fimF NC_007613.1 4421523 4422053 D Code: NU; COG: COG3539; fimbrial morphology protein 4421523..4422053 Shigella boydii Sb227 3783351 YP_410612.1 CDS fimG NC_007613.1 4422066 4422569 D Code: NU; COG: COG3539; fimbrial morphology protein 4422066..4422569 Shigella boydii Sb227 3783352 YP_410613.1 CDS fimH NC_007613.1 4422589 4423383 D D-mannose specific adhesin; minor fimbrial subunit 4422589..4423383 Shigella boydii Sb227 3783353 YP_410614.1 CDS SBO_4371 NC_007613.1 4423423 4424310 R Code: L; COG: COG2801; IS629 ORF2 complement(4423423..4424310) Shigella boydii Sb227 3783354 YP_410615.1 CDS SBO_4372 NC_007613.1 4424310 4424576 R Code: L; COG: COG2963; IS629 ORF1 complement(4424310..4424576) Shigella boydii Sb227 3783355 YP_410616.1 CDS uxuA NC_007613.1 4425582 4426766 D catalyzes the formation of 2-dehydro-3-deoxy-D-gluconate from mannonate; mannonate dehydratase 4425582..4426766 Shigella boydii Sb227 3783356 YP_410617.1 CDS uxuB NC_007613.1 4426847 4428307 D Code: G; COG: COG0246; D-mannonate oxidoreductase 4426847..4428307 Shigella boydii Sb227 3783357 YP_410618.1 CDS uxuR NC_007613.1 4428522 4429295 D regulates the expression of uxuBA; DNA-binding transcriptional repressor UxuR 4428522..4429295 Shigella boydii Sb227 3783358 YP_410619.1 CDS yjiC NC_007613.1 4429436 4430266 R hypothetical protein complement(4429436..4430266) Shigella boydii Sb227 3783359 YP_410620.1 CDS iraD NC_007613.1 4430929 4431330 D inhibitor of RssB activity in response to DNA damage; blocks degradation of stationary phase sigma factor RpoS; DNA replication/recombination/repair protein 4430929..4431330 Shigella boydii Sb227 3783360 YP_410621.1 CDS yjiE NC_007613.1 4431323 4432234 R Code: K; COG: COG0583; DNA-binding transcriptional regulator complement(4431323..4432234) Shigella boydii Sb227 3783361 YP_410622.1 CDS iadA NC_007613.1 4432299 4433471 R isoaspartyl dipeptidase complement(4432299..4433471) Shigella boydii Sb227 3783362 YP_410623.1 CDS yjiG NC_007613.1 4433484 4433945 R Code: S; COG: COG0700; hypothetical protein complement(4433484..4433945) Shigella boydii Sb227 3783363 YP_410624.1 CDS SBO_4381 NC_007613.1 4433942 4434289 R hypothetical protein complement(4433942..4434289) Shigella boydii Sb227 3783364 YP_410625.2 CDS yjiI NC_007613.1 4434874 4435272 D Code: J; COG: COG1859; hypothetical protein 4434874..4435272 Shigella boydii Sb227 3783365 YP_410626.1 CDS yjiJ NC_007613.1 4435442 4436614 R Code: GEPR; COG: COG0477; transporter complement(4435442..4436614) Shigella boydii Sb227 3783366 YP_410627.1 CDS yjiK NC_007613.1 4436682 4437653 R Code: S; COG: COG3204; hypothetical protein complement(4436682..4437653) Shigella boydii Sb227 3783367 YP_410628.1 CDS SBO_4385 NC_007613.1 4437607 4437864 R hypothetical protein complement(4437607..4437864) Shigella boydii Sb227 3783368 YP_410629.1 CDS yjiM NC_007613.1 4438904 4439812 R Code: E; COG: COG1775; hypothetical protein complement(4438904..4439812) Shigella boydii Sb227 3783370 YP_410630.1 CDS yjiN NC_007613.1 4439907 4441187 R Code: S; COG: COG2733; hypothetical protein complement(4439907..4441187) Shigella boydii Sb227 3783371 YP_410631.1 CDS yjiO NC_007613.1 4441228 4442460 R Code: GEPR; COG: COG0477; transporter complement(4441228..4442460) Shigella boydii Sb227 3783372 YP_410632.1 CDS SBO_4390 NC_007613.1 4442927 4443931 D Code: S; COG: COG5464; hypothetical protein 4442927..4443931 Shigella boydii Sb227 3783373 YP_410633.1 CDS SBO_4391 NC_007613.1 4444086 4444361 D Code: L; COG: COG2963; IS629 ORF1 4444086..4444361 Shigella boydii Sb227 3783374 YP_410634.1 CDS SBO_4392 NC_007613.1 4444361 4445248 D Code: L; COG: COG2801; IS629 ORF2 4444361..4445248 Shigella boydii Sb227 3783375 YP_410635.1 CDS SBO_4393 NC_007613.1 4445504 4446850 D penicillin G acylase 4445504..4446850 Shigella boydii Sb227 3783376 YP_410636.1 CDS SBO_4394 NC_007613.1 4447142 4448338 R Code: L; COG: COG3547; ISSfl2 ORF complement(4447142..4448338) Shigella boydii Sb227 3783377 YP_410637.1 CDS SBO_4395 NC_007613.1 4449280 4450167 R Code: L; COG: COG2801; IS629 ORF2 complement(4449280..4450167) Shigella boydii Sb227 3783378 YP_410638.1 CDS SBO_4396 NC_007613.1 4450167 4450442 R Code: L; COG: COG2963; IS629 ORF1 complement(4450167..4450442) Shigella boydii Sb227 3783379 YP_410639.1 CDS SBO_4397 NC_007613.1 4451013 4451351 D protein encoded within IS 4451013..4451351 Shigella boydii Sb227 3783380 YP_410640.1 CDS SBO_4398 NC_007613.1 4451421 4452416 D Code: L; COG: COG3436; protein encoded within IS 4451421..4452416 Shigella boydii Sb227 3783381 YP_410641.1 CDS SBO_4399 NC_007613.1 4452436 4453077 D hypothetical protein 4452436..4453077 Shigella boydii Sb227 3783382 YP_410642.1 CDS yjiA NC_007613.1 4453179 4454033 R Code: R; COG: COG0523; GTP-binding protein YjiA complement(4453179..4454033) Shigella boydii Sb227 3783383 YP_410643.1 CDS yjiX NC_007613.1 4454146 4454349 R Code: S; COG: COG2879; hypothetical protein complement(4454146..4454349) Shigella boydii Sb227 3783384 YP_410644.1 CDS yjiY NC_007613.1 4454480 4456645 R Code: T; COG: COG1966; carbon starvation protein complement(4454480..4456645) Shigella boydii Sb227 3783385 YP_410645.1 CDS hpaC NC_007613.1 4457023 4457535 R Code: R; COG: COG1853; 4-hydroxyphenylacetate 3-monooxygenase coupling protein complement(4457023..4457535) Shigella boydii Sb227 3783386 YP_410646.1 CDS hpaB NC_007613.1 4457553 4459115 R Code: Q; COG: COG2368; 4-hydroxyphenylacetate 3-monooxygenase complement(4457553..4459115) Shigella boydii Sb227 3783387 YP_410647.1 CDS hpaX NC_007613.1 4460262 4461638 R Code: GEPR; COG: COG0477; 4-hydroxyphenylacetate permease complement(4460262..4461638) Shigella boydii Sb227 3783389 YP_410648.1 CDS hpaI NC_007613.1 4461813 4462601 R HHED aldolase; Code: G; COG: COG3836; 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase complement(4461813..4462601) Shigella boydii Sb227 3783390 YP_410649.1 CDS hpaH NC_007613.1 4462765 4463415 R Code: Q; COG: COG3971; 2-oxo-hepta-3-ene-1,7-dioic acid hydratase complement(4462765..4463415) Shigella boydii Sb227 3783391 YP_410650.1 CDS hpaF NC_007613.1 4463526 4463906 R Code: E; COG: COG3232; 5-carboxymethyl-2-hydroxymuconate delta-isomerase complement(4463526..4463906) Shigella boydii Sb227 3783392 YP_410651.1 CDS hpaD NC_007613.1 4463916 4464767 R Code: S; COG: COG3384; homoprotocatechuate dyoxygenase complement(4463916..4464767) Shigella boydii Sb227 3783393 YP_410652.1 CDS hpaE NC_007613.1 4464769 4466235 R Code: C; COG: COG1012; 5-carboxy-2-hydroxymuconate semialdehyde dehydrogenase complement(4464769..4466235) Shigella boydii Sb227 3783394 YP_410653.1 CDS hpaG NC_007613.1 4466232 4467521 R Code: Q; COG: COG0179; 5-oxo-1,2,5-tricarboxilic-3-penten acid decarboxylase/isomerase complement(4466232..4467521) Shigella boydii Sb227 3783395 YP_410654.1 CDS hpcR NC_007613.1 4467793 4468239 D Code: K; COG: COG1846; homoprotocatechuate degradative operon repressor 4467793..4468239 Shigella boydii Sb227 3783396 YP_410655.1 CDS tsr NC_007613.1 4468358 4470013 D serine sensor receptor; Code: NT; COG: COG0840; methyl-accepting chemotaxis protein I 4468358..4470013 Shigella boydii Sb227 3783397 YP_410656.1 CDS insB NC_007613.1 4471208 4471711 D Code: L; COG: COG1662; IS1 ORF2 4471208..4471711 Shigella boydii Sb227 3783398 YP_410657.1 CDS yjjM NC_007613.1 4472415 4473221 R Code: K; COG: COG1802; hypothetical protein complement(4472415..4473221) Shigella boydii Sb227 3783400 YP_410658.1 CDS yjjN NC_007613.1 4473453 4474490 D Code: ER; COG: COG1063; oxidoreductase 4473453..4474490 Shigella boydii Sb227 3783401 YP_410659.2 CDS mdoB NC_007613.1 4474629 4476920 R catalyzes the transfer of phosphoglycerol to the glucan backbone; phosphoglycerol transferase I complement(4474629..4476920) Shigella boydii Sb227 3783402 YP_410660.1 CDS yjjA NC_007613.1 4477174 4477671 R hypothetical protein complement(4477174..4477671) Shigella boydii Sb227 3783403 YP_410661.1 CDS dnaC NC_007613.1 4477717 4478454 R acts to load the DnaB helicase onto the initiation site during DNA replication; DNA replication protein DnaC complement(4477717..4478454) Shigella boydii Sb227 3783404 YP_410662.1 CDS dnaT NC_007613.1 4478457 4478996 R This protein is required for primosome-dependent normal DNA replication; it is also involved in inducing stable DNA replication during SOS response. It forms, in concert with dnaB protein and other prepriming proteins dnaC, N, N', N'' a prepriming protein complex on the specific site of the template DNA recognized by protein N'; primosomal protein DnaI complement(4478457..4478996) Shigella boydii Sb227 3783405 YP_410663.2 CDS yjjB NC_007613.1 4479104 4479577 R Code: S; COG: COG3610; hypothetical protein complement(4479104..4479577) Shigella boydii Sb227 3783406 YP_410664.1 CDS yjjP NC_007613.1 4479568 4480401 R Code: S; COG: COG2966; structural protein complement(4479568..4480401) Shigella boydii Sb227 3783407 YP_410665.1 CDS yjjQ NC_007613.1 4480957 4481682 D Code: TK; COG: COG2197; regulator 4480957..4481682 Shigella boydii Sb227 3783408 YP_410666.1 CDS fhuF NC_007613.1 4482354 4483142 R Code: R; COG: COG4114; ferric hydroximate transport ferric iron reductase complement(4482354..4483142) Shigella boydii Sb227 3783410 YP_410667.1 CDS SBO_4428 NC_007613.1 4483172 4483519 D inner membrane protein 4483172..4483519 Shigella boydii Sb227 3783411 YP_410668.1 CDS rsmC NC_007613.1 4484148 4485179 R 16S rRNA M2G1207 methyltransferase; one of many enzymes that modify bases of the ribosomal RNA; this enzyme methylates the G at position 1207 of the small ribosomal subunit; 16S ribosomal RNA m2G1207 methyltransferase complement(4484148..4485179) Shigella boydii Sb227 3783415 YP_410669.1 CDS holD NC_007613.1 4485282 4485695 D with the chi subunit binds to single-strand binding (SSB) protein and acts as a bridge between the DnaX clamp loader complex and the SSB; DNA polymerase III subunit psi 4485282..4485695 Shigella boydii Sb227 3783416 YP_410670.1 CDS rimI NC_007613.1 4485664 4486110 D alanine acetyltransferase that specifically acetylates ribosomal protein S18; ribosomal-protein-alanine N-acetyltransferase 4485664..4486110 Shigella boydii Sb227 3783417 YP_410671.1 CDS yjjG NC_007613.1 4486125 4486802 D manganese-dependent 5'-nucleotidase; specific for 5'-UMP, 5'-dUMP, and 5'-dTMP; member of haloacid dehalogenase (HAD)-like hydrolase superfamily; nucleotidase 4486125..4486802 Shigella boydii Sb227 3783418 YP_410672.1 CDS prfC NC_007613.1 4486893 4488482 D stimulates the release of release factors 1 and 2 from the ribosome after hydrolysis of the ester bond in peptidyl-tRNA has occurred; GDP/GTP-binding protein; peptide chain release factor 3 4486893..4488482 Shigella boydii Sb227 3783419 YP_410673.1 CDS yjjU NC_007613.1 4489890 4490963 D Code: R; COG: COG4667; hypothetical protein 4489890..4490963 Shigella boydii Sb227 3783421 YP_410674.1 CDS yjjV NC_007613.1 4490960 4491742 D Code: L; COG: COG0084; deoxyribonuclease YjjV 4490960..4491742 Shigella boydii Sb227 3783422 YP_410675.1 CDS yjjW NC_007613.1 4491956 4492819 R Code: O; COG: COG1180; activating enzyme complement(4491956..4492819) Shigella boydii Sb227 3783423 YP_410676.1 CDS yjjI NC_007613.1 4492791 4494101 R hypothetical protein complement(4492791..4494101) Shigella boydii Sb227 3783424 YP_410677.1 CDS SBO_4442 NC_007613.1 4494492 4495310 D Code: L; COG: COG2801; IS911 ORF2 4494492..4495310 Shigella boydii Sb227 3783425 YP_410678.1 CDS deoC NC_007613.1 4495792 4496571 D catalyzes the formation of D-glyceraldehyde 3-phosphate and acetaldehyde from 2-deoxy-D-ribose-5-phosphate; deoxyribose-phosphate aldolase 4495792..4496571 Shigella boydii Sb227 3783426 YP_410679.1 CDS deoA NC_007613.1 4496698 4498020 D Catalyzes the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate; thymidine phosphorylase 4496698..4498020 Shigella boydii Sb227 3783427 YP_410680.1 CDS deoB NC_007613.1 4498072 4499295 D catalyzes the transfer of phosphate between the C1 and C5 carbons of pentose; phosphopentomutase 4498072..4499295 Shigella boydii Sb227 3783428 YP_410681.1 CDS deoD NC_007613.1 4499375 4500094 D catalyzes the reversible phosphorolysis of ribonucleosides and 2'- deoxyribonucleosides to the free base and (2'-deoxy)ribose-1- phosphate; purine nucleoside phosphorylase 4499375..4500094 Shigella boydii Sb227 3783429 YP_410682.1 CDS insB NC_007613.1 4500267 4500770 R Code: L; COG: COG1662; IS1 ORF2 complement(4500267..4500770) Shigella boydii Sb227 3783430 YP_410683.1 CDS SBO_4448 NC_007613.1 4500845 4501120 D IS1 encoded protein 4500845..4501120 Shigella boydii Sb227 3783431 YP_410684.1 CDS lplA NC_007613.1 4501326 4502342 R Catalyzes both the ATP-dependent activation of exogenously supplied lipoate to lipoyl-AMP and the transfer of the activated lipoyl on the lipoate-dependent enzymes. Creates an amide linkage that joins the free carboxyl group of lipoic acid to the epsilon-amino group of a specific lysine residue in lipoyl domain of apoproteins; lipoate-protein ligase A complement(4501326..4502342) Shigella boydii Sb227 3783432 YP_410685.1 CDS smp NC_007613.1 4502370 4503014 R Code: R; COG: COG3726; hypothetical protein complement(4502370..4503014) Shigella boydii Sb227 3783433 YP_410686.1 CDS serB NC_007613.1 4503120 4504088 D catalyzes the formation of serine from O-phosphoserine; phosphoserine phosphatase 4503120..4504088 Shigella boydii Sb227 3783434 YP_410687.1 CDS sms NC_007613.1 4504137 4505519 D Sms; stabilizes the strand-invasion intermediate during the DNA repair; involved in recombination of donor DNA and plays an important role in DNA damage repair after exposure to mutagenic agents; DNA repair protein RadA 4504137..4505519 Shigella boydii Sb227 3783435 YP_410688.2 CDS nadR NC_007613.1 4505540 4506772 D catalyzes the formation of NAD(+) from nicotinamide ribonucleotide; nicotinamide-nucleotide adenylyltransferase 4505540..4506772 Shigella boydii Sb227 3783436 YP_410689.1 CDS yjjK NC_007613.1 4507079 4508746 R ChvD; in Agrobacterium tumefaciens, mutations in both Walker boxes were found to affect virulence; ABC transporter ATP-binding protein complement(4507079..4508746) Shigella boydii Sb227 3783437 YP_410690.2 CDS slt NC_007613.1 4508957 4510894 D catalyzes the cleavage of the glycosidic bonds between N-acetylmuramic acid and N-acetylglucosamine residues in peptidoglycan; lytic murein transglycosylase 4508957..4510894 Shigella boydii Sb227 3783438 YP_410691.1 CDS trpR NC_007613.1 4510984 4511310 D trp aporepressor; When complexed with L-tryptophan it binds the operator region of the trp operon and prevents the initiation of transcription; Trp operon repressor 4510984..4511310 Shigella boydii Sb227 3783439 YP_410692.2 CDS yjjX NC_007613.1 4511395 4511916 R pyrophosphatase; has activity against dUTP and dITP; the crystal structure of the Vibrio protein showed similarity to Methanococcus janaschii Mj0226; in Vibrio cholerae this gene is part of the Mba operon that is involved in regulation and maintenance of biofilms; in Escherichia coli overexpression of this gene leads to resistance to an HMP analog; NTPase complement(4511395..4511916) Shigella boydii Sb227 3783440 YP_410693.1 CDS gpmB NC_007613.1 4511968 4512615 D catalyzes reactions involving the transfer of phospho groups between the three carbon atoms of phosphoglycerate; phosphoglycerate mutase 4511968..4512615 Shigella boydii Sb227 3783441 YP_410694.1 CDS rob NC_007613.1 4512612 4513481 R Code: K; COG: COG2207; right origin-binding protein complement(4512612..4513481) Shigella boydii Sb227 3783442 YP_410695.1 CDS creA NC_007613.1 4513692 4514165 D Code: S; COG: COG3045; hypothetical protein 4513692..4514165 Shigella boydii Sb227 3783443 YP_410696.1 CDS creB NC_007613.1 4514202 4514867 D response regulator in two-component regulatory system with CreC; CreB protein is phosphorylated by sensor protein phospho-CreC; involved in catabolic regulation; DNA-binding response regulator CreB 4514202..4514867 Shigella boydii Sb227 3783444 YP_410697.1 CDS creC NC_007613.1 4514867 4516291 D alternative sensor for pho regulon; part of a two-component regulatory system with CreB or PhoB; involved in catabolic regulation; sensory histidine kinase CreC 4514867..4516291 Shigella boydii Sb227 3783445 YP_410698.1 CDS creD NC_007613.1 4516349 4517701 D Code: V; COG: COG4452; hypothetical protein 4516349..4517701 Shigella boydii Sb227 3783446 YP_410699.1 CDS arcA NC_007613.1 4517761 4518477 R sensors, ArcB and CpxA; Code: TK; COG: COG0745; two-component response regulator complement(4517761..4518477) Shigella boydii Sb227 3783447 YP_410700.1 CDS yjjY NC_007613.1 4518573 4518713 D hypothetical protein 4518573..4518713 Shigella boydii Sb227 3783448 YP_410701.1 CDS lasT NC_007613.1 4519113 4519799 D member of the SPOUT superfamily of methyltransferases; RNA methyltransferase 4519113..4519799 Shigella boydii Sb227 3783449 SBO_0191 tRNA SBO_0191 NC_007613.1 211357 211433 D tRNA-Ile 211357..211433 Shigella boydii Sb227 3779556 SBO_0192 tRNA SBO_0192 NC_007613.1 211476 211551 D tRNA-Ala 211476..211551 Shigella boydii Sb227 3779557 SBO_0195 tRNA SBO_0195 NC_007613.1 214904 214980 D tRNA-Asp 214904..214980 Shigella boydii Sb227 3779560 SBO_0205 tRNA SBO_0205 NC_007613.1 222886 222962 D tRNA-Asp 222886..222962 Shigella boydii Sb227 3779314 SBO_0250 tRNA SBO_0250 NC_007613.1 266336 266411 D tRNA-Thr 266336..266411 Shigella boydii Sb227 3780180 SBO_0432 tRNA SBO_0432 NC_007613.1 445969 446045 D tRNA-Arg 445969..446045 Shigella boydii Sb227 3780069 SBO_0527 tRNA SBO_0527 NC_007613.1 547311 547385 R tRNA-Gln complement(547311..547385) Shigella boydii Sb227 3779158 SBO_0528 tRNA SBO_0528 NC_007613.1 547423 547497 R tRNA-Gln complement(547423..547497) Shigella boydii Sb227 3779520 SBO_0530 tRNA SBO_0530 NC_007613.1 547546 547622 R tRNA-Met complement(547546..547622) Shigella boydii Sb227 3779522 SBO_0531 tRNA SBO_0531 NC_007613.1 547638 547712 R tRNA-Gln complement(547638..547712) Shigella boydii Sb227 3779523 SBO_0533 tRNA SBO_0533 NC_007613.1 547747 547821 R tRNA-Gln complement(547747..547821) Shigella boydii Sb227 3779525 SBO_0534 tRNA SBO_0534 NC_007613.1 547845 547929 R tRNA-Leu complement(547845..547929) Shigella boydii Sb227 3779526 SBO_0535 tRNA SBO_0535 NC_007613.1 547938 548014 R tRNA-Met complement(547938..548014) Shigella boydii Sb227 3779527 SBO_0602 tRNA SBO_0602 NC_007613.1 625123 625198 D tRNA-Lys 625123..625198 Shigella boydii Sb227 3779862 SBO_0603 tRNA SBO_0603 NC_007613.1 625334 625409 D tRNA-Val 625334..625409 Shigella boydii Sb227 3779863 SBO_0604 tRNA SBO_0604 NC_007613.1 625413 625488 D tRNA-Lys 625413..625488 Shigella boydii Sb227 3779864 SBO_0627 tRNA SBO_0627 NC_007613.1 646877 646953 D tRNA-Met 646877..646953 Shigella boydii Sb227 3779625 SBO_0628 tRNA SBO_0628 NC_007613.1 646955 647031 D tRNA-Arg 646955..647031 Shigella boydii Sb227 3779626 SBO_0629 tRNA SBO_0629 NC_007613.1 647034 647109 D tRNA-Thr 647034..647109 Shigella boydii Sb227 3779627 SBO_0630 tRNA SBO_0630 NC_007613.1 647113 647187 D tRNA-Gly 647113..647187 Shigella boydii Sb227 3779628 SBO_0816 tRNA SBO_0816 NC_007613.1 828688 828775 R tRNA-Ser complement(828688..828775) Shigella boydii Sb227 3779511 SBO_0978 tRNA SBO_0978 NC_007613.1 1003287 1003376 R tRNA-Ser complement(1003287..1003376) Shigella boydii Sb227 3779289 SBO_0980 tRNA SBO_0980 NC_007613.1 1004368 1004443 D tRNA-Asn 1004368..1004443 Shigella boydii Sb227 3779534 SBO_1095 tRNA SBO_1095 NC_007613.1 1104335 1104410 D tRNA-Gly 1104335..1104410 Shigella boydii Sb227 3779256 SBO_1096 tRNA SBO_1096 NC_007613.1 1104465 1104538 D tRNA-Cys 1104465..1104538 Shigella boydii Sb227 3779257 SBO_1097 tRNA SBO_1097 NC_007613.1 1104551 1104637 D tRNA-Leu 1104551..1104637 Shigella boydii Sb227 3779258 SBO_1214 tRNA SBO_1214 NC_007613.1 1212421 1212496 R tRNA-Asn complement(1212421..1212496) Shigella boydii Sb227 3779571 SBO_1218 tRNA SBO_1218 NC_007613.1 1215142 1215217 R tRNA-Asn complement(1215142..1215217) Shigella boydii Sb227 3779575 SBO_1220 tRNA SBO_1220 NC_007613.1 1216950 1217025 D tRNA-Asn 1216950..1217025 Shigella boydii Sb227 3779577 SBO_1466 tRNA SBO_1466 NC_007613.1 1442481 1442557 R tRNA-Val complement(1442481..1442557) Shigella boydii Sb227 3780449 SBO_1701 tRNA SBO_1701 NC_007613.1 1687120 1687195 R tRNA-Thr complement(1687120..1687195) Shigella boydii Sb227 3780684 SBO_1702 tRNA SBO_1702 NC_007613.1 1687198 1687274 R tRNA-Arg complement(1687198..1687274) Shigella boydii Sb227 3780685 SBO_1703 tRNA SBO_1703 NC_007613.1 1687276 1687352 R tRNA-Met complement(1687276..1687352) Shigella boydii Sb227 3780686 SBO_1838 tRNA SBO_1838 NC_007613.1 1816221 1816305 D tRNA-Tyr 1816221..1816305 Shigella boydii Sb227 3780821 SBO_1931 tRNA SBO_1931 NC_007613.1 1908627 1908703 R tRNA-Arg complement(1908627..1908703) Shigella boydii Sb227 3780914 SBO_1932 tRNA SBO_1932 NC_007613.1 1908717 1908793 R tRNA-Arg complement(1908717..1908793) Shigella boydii Sb227 3780915 SBO_1933 tRNA SBO_1933 NC_007613.1 1908801 1908876 R tRNA-Met complement(1908801..1908876) Shigella boydii Sb227 3780916 SBO_2036 tRNA SBO_2036 NC_007613.1 2003033 2003120 D tRNA-Ser 2003033..2003120 Shigella boydii Sb227 3781019 SBO_2135 tRNA SBO_2135 NC_007613.1 2108736 2108812 R tRNA-Pro complement(2108736..2108812) Shigella boydii Sb227 3781118 SBO_2260 tRNA SBO_2260 NC_007613.1 2248602 2248689 D tRNA-Ser 2248602..2248689 Shigella boydii Sb227 3781243 SBO_2390 tRNA SBO_2390 NC_007613.1 2380195 2380269 D tRNA-Arg 2380195..2380269 Shigella boydii Sb227 3781373 SBO_2422 tRNA SBO_2422 NC_007613.1 2420062 2420137 R tRNA-Ala complement(2420062..2420137) Shigella boydii Sb227 3781405 SBO_2423 tRNA SBO_2423 NC_007613.1 2420177 2420252 R tRNA-Ala complement(2420177..2420252) Shigella boydii Sb227 3781406 SBO_2427 tRNA SBO_2427 NC_007613.1 2422951 2423026 D tRNA-Val 2422951..2423026 Shigella boydii Sb227 3781410 SBO_2428 tRNA SBO_2428 NC_007613.1 2423070 2423145 D tRNA-Val 2423070..2423145 Shigella boydii Sb227 3781411 SBO_2429 tRNA SBO_2429 NC_007613.1 2423192 2423267 D tRNA-Val 2423192..2423267 Shigella boydii Sb227 3781412 SBO_2430 tRNA SBO_2430 NC_007613.1 2423272 2423347 D tRNA-Lys 2423272..2423347 Shigella boydii Sb227 3781413 SBO_2622 tRNA SBO_2622 NC_007613.1 2629050 2629125 R tRNA-Ala complement(2629050..2629125) Shigella boydii Sb227 3781605 SBO_2623 tRNA SBO_2623 NC_007613.1 2629168 2629244 R tRNA-Ile complement(2629168..2629244) Shigella boydii Sb227 3781606 SBO_2697 tRNA SBO_2697 NC_007613.1 2703853 2703929 D tRNA-Met 2703853..2703929 Shigella boydii Sb227 3781680 SBO_2698 tRNA SBO_2698 NC_007613.1 2703963 2704039 D tRNA-Met 2703963..2704039 Shigella boydii Sb227 3781681 SBO_2699 tRNA SBO_2699 NC_007613.1 2704072 2704148 D tRNA-Met 2704072..2704148 Shigella boydii Sb227 3781682 SBO_2823 tRNA SBO_2823 NC_007613.1 2833374 2833466 D tRNA-Ser 2833374..2833466 Shigella boydii Sb227 3781806 SBO_2824 tRNA SBO_2824 NC_007613.1 2833470 2833546 D tRNA-Arg 2833470..2833546 Shigella boydii Sb227 3781807 SBO_2825 tRNA SBO_2825 NC_007613.1 2833744 2833820 D tRNA-Arg 2833744..2833820 Shigella boydii Sb227 3781808 SBO_2826 tRNA SBO_2826 NC_007613.1 2834019 2834095 D tRNA-Arg 2834019..2834095 Shigella boydii Sb227 3781809 SBO_2928 tRNA SBO_2928 NC_007613.1 2932228 2932303 D tRNA-Met 2932228..2932303 Shigella boydii Sb227 3781911 SBO_3022 tRNA SBO_3022 NC_007613.1 3021600 3021675 R tRNA-Phe complement(3021600..3021675) Shigella boydii Sb227 3782005 SBO_3122 tRNA SBO_3122 NC_007613.1 3126814 3126887 D tRNA-Gly 3126814..3126887 Shigella boydii Sb227 3782105 SBO_3208 tRNA SBO_3208 NC_007613.1 3212833 3212919 D tRNA-Leu 3212833..3212919 Shigella boydii Sb227 3782191 SBO_3211 tRNA SBO_3211 NC_007613.1 3216702 3216778 D tRNA-Met 3216702..3216778 Shigella boydii Sb227 3782194 SBO_3267 tRNA SBO_3267 NC_007613.1 3271853 3271928 R tRNA-Thr complement(3271853..3271928) Shigella boydii Sb227 3782250 SBO_3270 tRNA SBO_3270 NC_007613.1 3275241 3275316 R tRNA-Ala complement(3275241..3275316) Shigella boydii Sb227 3782253 SBO_3271 tRNA SBO_3271 NC_007613.1 3275359 3275435 R tRNA-Ile complement(3275359..3275435) Shigella boydii Sb227 3782254 SBO_3544 tRNA SBO_3544 NC_007613.1 3554060 3554136 R tRNA-Pro complement(3554060..3554136) Shigella boydii Sb227 3782527 SBO_3719 tRNA SBO_3719 NC_007613.1 3732158 3732252 R tRNA-Sec complement(3732158..3732252) Shigella boydii Sb227 3782702 SBO_3770 tRNA SBO_3770 NC_007613.1 3791642 3791717 D tRNA-Glu 3791642..3791717 Shigella boydii Sb227 3782753 SBO_3773 tRNA SBO_3773 NC_007613.1 3795080 3795156 D tRNA-Asp 3795080..3795156 Shigella boydii Sb227 3782756 SBO_3774 tRNA SBO_3774 NC_007613.1 3795165 3795240 D tRNA-Trp 3795165..3795240 Shigella boydii Sb227 3782757 SBO_3808 tRNA SBO_3808 NC_007613.1 3831861 3831937 D tRNA-Arg 3831861..3831937 Shigella boydii Sb227 3782791 SBO_3809 tRNA SBO_3809 NC_007613.1 3831996 3832071 D tRNA-His 3831996..3832071 Shigella boydii Sb227 3782792 SBO_3810 tRNA SBO_3810 NC_007613.1 3832092 3832178 D tRNA-Leu 3832092..3832178 Shigella boydii Sb227 3782793 SBO_3811 tRNA SBO_3811 NC_007613.1 3832221 3832297 D tRNA-Pro 3832221..3832297 Shigella boydii Sb227 3782794 SBO_3864 tRNA SBO_3864 NC_007613.1 3890415 3890491 D tRNA-Ile 3890415..3890491 Shigella boydii Sb227 3782847 SBO_3865 tRNA SBO_3865 NC_007613.1 3890534 3890609 D tRNA-Ala 3890534..3890609 Shigella boydii Sb227 3782848 SBO_3988 tRNA SBO_3988 NC_007613.1 4026850 4026926 D tRNA-Ile 4026850..4026926 Shigella boydii Sb227 3782971 SBO_3989 tRNA SBO_3989 NC_007613.1 4026969 4027044 D tRNA-Ala 4026969..4027044 Shigella boydii Sb227 3782972 SBO_3996 tRNA SBO_3996 NC_007613.1 4033810 4033885 D tRNA-Thr 4033810..4033885 Shigella boydii Sb227 3782979 SBO_3997 tRNA SBO_3997 NC_007613.1 4033894 4033978 D tRNA-Tyr 4033894..4033978 Shigella boydii Sb227 3782980 SBO_3998 tRNA SBO_3998 NC_007613.1 4034095 4034169 D tRNA-Gly 4034095..4034169 Shigella boydii Sb227 3782981 SBO_3999 tRNA SBO_3999 NC_007613.1 4034176 4034251 D tRNA-Thr 4034176..4034251 Shigella boydii Sb227 3782982 SBO_4029 tRNA SBO_4029 NC_007613.1 4068177 4068252 D tRNA-Glu 4068177..4068252 Shigella boydii Sb227 3783012 SBO_4175 tRNA SBO_4175 NC_007613.1 4228827 4228911 R tRNA-Leu complement(4228827..4228911) Shigella boydii Sb227 3783158 SBO_4291 tRNA SBO_4291 NC_007613.1 4341622 4341697 R tRNA-Gly complement(4341622..4341697) Shigella boydii Sb227 3783274 SBO_4292 tRNA SBO_4292 NC_007613.1 4341733 4341808 R tRNA-Gly complement(4341733..4341808) Shigella boydii Sb227 3783275 SBO_4293 tRNA SBO_4293 NC_007613.1 4341844 4341919 R tRNA-Gly complement(4341844..4341919) Shigella boydii Sb227 3783276 SBO_4294 tRNA SBO_4294 NC_007613.1 4342077 4342152 R tRNA-Gly complement(4342077..4342152) Shigella boydii Sb227 3783277 SBO_4321 tRNA SBO_4321 NC_007613.1 4371472 4371547 D tRNA-Phe 4371472..4371547 Shigella boydii Sb227 3783304 SBO_4429 tRNA SBO_4429 NC_007613.1 4483558 4483644 R tRNA-Leu complement(4483558..4483644) Shigella boydii Sb227 3783412 SBO_4430 tRNA SBO_4430 NC_007613.1 4483679 4483765 R tRNA-Leu complement(4483679..4483765) Shigella boydii Sb227 3783413 SBO_4431 tRNA SBO_4431 NC_007613.1 4483794 4483880 R tRNA-Leu complement(4483794..4483880) Shigella boydii Sb227 3783414 SBO_0190 rRNA rrsH NC_007613.1 209747 211288 D 16S ribosomal RNA 209747..211288 Shigella boydii Sb227 3779555 SBO_0193 rRNA rrlH NC_007613.1 211735 214638 D 23S ribosomal RNA 211735..214638 Shigella boydii Sb227 3779558 SBO_0194 rRNA rrfH NC_007613.1 214733 214851 D 5S ribosomal RNA 214733..214851 Shigella boydii Sb227 3779559 SBO_2620 rRNA rrfG NC_007613.1 2625750 2625868 R 5S ribosomal RNA complement(2625750..2625868) Shigella boydii Sb227 3781603 SBO_2621 rRNA rrlG NC_007613.1 2625963 2628866 R 23S ribosomal RNA complement(2625963..2628866) Shigella boydii Sb227 3781604 SBO_2624 rRNA rrsG NC_007613.1 2629313 2630854 R 16S ribosomal RNA complement(2629313..2630854) Shigella boydii Sb227 3781607 SBO_3266 rRNA rrfF NC_007613.1 3271696 3271812 D 5S ribosomal RNA 3271696..3271812 Shigella boydii Sb227 3782249 SBO_3268 rRNA rrfD NC_007613.1 3271941 3272059 R 5S ribosomal RNA complement(3271941..3272059) Shigella boydii Sb227 3782251 SBO_3269 rRNA rrlD NC_007613.1 3272154 3275057 R 23S ribosomal RNA complement(3272154..3275057) Shigella boydii Sb227 3782252 SBO_3272 rRNA rrsD NC_007613.1 3275504 3277045 R 16S ribosomal RNA complement(3275504..3277045) Shigella boydii Sb227 3782255 SBO_3769 rRNA rrsC NC_007613.1 3790015 3791556 D 16S ribosomal RNA 3790015..3791556 Shigella boydii Sb227 3782752 SBO_3771 rRNA rrlC NC_007613.1 3791911 3794814 D 23S ribosomal RNA 3791911..3794814 Shigella boydii Sb227 3782754 SBO_3772 rRNA rrfC NC_007613.1 3794909 3795027 D 5S ribosomal RNA 3794909..3795027 Shigella boydii Sb227 3782755 SBO_3863 rRNA rrsA NC_007613.1 3888805 3890346 D 16S ribosomal RNA 3888805..3890346 Shigella boydii Sb227 3782846 SBO_3866 rRNA rrlA NC_007613.1 3890793 3893696 D 23S ribosomal RNA 3890793..3893696 Shigella boydii Sb227 3782849 SBO_3867 rRNA rrfA NC_007613.1 3893791 3893909 D 5S ribosomal RNA 3893791..3893909 Shigella boydii Sb227 3782850 SBO_3987 rRNA rrsB NC_007613.1 4025240 4026781 D 16S ribosomal RNA 4025240..4026781 Shigella boydii Sb227 3782970 SBO_3990 rRNA rrlB NC_007613.1 4027228 4030131 D 23S ribosomal RNA 4027228..4030131 Shigella boydii Sb227 3782973 SBO_3991 rRNA rrfB NC_007613.1 4030226 4030344 D 5S ribosomal RNA 4030226..4030344 Shigella boydii Sb227 3782974 SBO_4028 rRNA rrsE NC_007613.1 4066550 4068091 D 16S ribosomal RNA 4066550..4068091 Shigella boydii Sb227 3783011 SBO_4030 rRNA rrlE NC_007613.1 4068446 4071349 D 23S ribosomal RNA 4068446..4071349 Shigella boydii Sb227 3783013 SBO_4031 rRNA rrfE NC_007613.1 4071444 4071562 D 5S ribosomal RNA 4071444..4071562 Shigella boydii Sb227 3783014