-- dump date 20140620_065410 -- 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 373384000001 SEQ_END SEQ_END NC_008258.1 4574284 4574284 DR NC_008258.1; contig end 4574284..4574284 Shigella flexneri 5 str. 8401 YP_687595.1 CDS thrA NC_008258.1 336 2798 D 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 336..2798 Shigella flexneri 5 str. 8401 4207799 YP_687596.1 CDS thrB NC_008258.1 2800 3732 D catalyzes the formation of O-phospho-L-homoserine from L-homoserine in threonine biosynthesis from asparate; homoserine kinase 2800..3732 Shigella flexneri 5 str. 8401 4207800 YP_687597.1 CDS thrC NC_008258.1 3733 5019 D catalyzes the formation of L-threonine from O-phospho-L-homoserine; threonine synthase 3733..5019 Shigella flexneri 5 str. 8401 4207801 YP_687598.1 CDS SFV_0004 NC_008258.1 5242 5529 D hypothetical protein 5242..5529 Shigella flexneri 5 str. 8401 4207802 YP_687599.1 CDS yaaA NC_008258.1 5682 6458 R Code: S; COG: COG3022; hypothetical protein complement(5682..6458) Shigella flexneri 5 str. 8401 4207803 YP_687600.2 CDS talB NC_008258.1 8303 9256 D Code: G; COG: COG0176; transaldolase B 8303..9256 Shigella flexneri 5 str. 8401 4207805 YP_687601.1 CDS mogA NC_008258.1 9368 9958 D forms a trimer; related to eukaryotic protein gephyrin; functions during molybdenum cofactor biosynthesis; molybdenum cofactor biosynthesis protein MogA 9368..9958 Shigella flexneri 5 str. 8401 4207806 YP_687602.1 CDS yaaH NC_008258.1 9993 10559 R Code: S; COG: COG1584; hypothetical protein complement(9993..10559) Shigella flexneri 5 str. 8401 4207807 YP_687603.1 CDS SFV_0010 NC_008258.1 10708 11421 R Code: S; COG: COG4735; hypothetical protein complement(10708..11421) Shigella flexneri 5 str. 8401 4207808 YP_687604.1 CDS yaaI NC_008258.1 11447 11851 R hypothetical protein complement(11447..11851) Shigella flexneri 5 str. 8401 4207809 YP_687605.1 CDS dnaK NC_008258.1 12228 14144 D DNA biosynthesis; 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 12228..14144 Shigella flexneri 5 str. 8401 4207810 YP_687606.1 CDS dnaJ NC_008258.1 14233 15363 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; molecular chaperone DnaJ 14233..15363 Shigella flexneri 5 str. 8401 4207811 YP_687607.1 CDS nhaA NC_008258.1 16206 17372 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 16206..17372 Shigella flexneri 5 str. 8401 4210405 YP_687608.1 CDS nhaR NC_008258.1 17438 18337 D Na+/H+ antiporter regulatory protein; activates the genes nhaA and osmC; transcriptional activator NhaR 17438..18337 Shigella flexneri 5 str. 8401 4210406 YP_687609.1 CDS insB NC_008258.1 18750 19253 R Code: L; COG: COG1662; IS1 ORF2 complement(18750..19253) Shigella flexneri 5 str. 8401 4210407 YP_687610.1 CDS SFV_0017 NC_008258.1 19328 19531 D IS1 encoded protein 19328..19531 Shigella flexneri 5 str. 8401 4210408 YP_687611.1 CDS rpsT NC_008258.1 19836 20099 R binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase; 30S ribosomal protein S20 complement(19836..20099) Shigella flexneri 5 str. 8401 4210409 YP_687612.1 CDS ribF NC_008258.1 20428 21369 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 20428..21369 Shigella flexneri 5 str. 8401 4210410 YP_687613.1 CDS ileS NC_008258.1 21460 24228 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 type 1 subfamily; some organisms carry two different copies of this enzyme; isoleucyl-tRNA synthetase 21460..24228 Shigella flexneri 5 str. 8401 4210411 YP_687614.1 CDS lspA NC_008258.1 24228 24722 D lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis; lipoprotein signal peptidase 24228..24722 Shigella flexneri 5 str. 8401 4210412 YP_687615.1 CDS slpA NC_008258.1 24809 25258 D a rotamase; Code: O; COG: COG1047; peptidyl-prolyl cis- trans isomerase 24809..25258 Shigella flexneri 5 str. 8401 4210413 YP_687616.1 CDS ispH NC_008258.1 25260 26210 D 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 25260..26210 Shigella flexneri 5 str. 8401 4210414 YP_687617.1 CDS yaaF NC_008258.1 26276 27190 D catalyzes the hydrolysis of both purine and pyrimidine ribonucleosides; ribonucleoside hydrolase RihC 26276..27190 Shigella flexneri 5 str. 8401 4210415 YP_687618.2 CDS dapB NC_008258.1 27357 28178 D catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis; dihydrodipicolinate reductase 27357..28178 Shigella flexneri 5 str. 8401 4210416 YP_687619.1 CDS carA NC_008258.1 28634 29782 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 28634..29782 Shigella flexneri 5 str. 8401 4210417 YP_687620.1 CDS carB NC_008258.1 29800 33021 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 29800..33021 Shigella flexneri 5 str. 8401 4210418 YP_687621.1 CDS caiF NC_008258.1 33178 33678 D regulator of carnitine metabolism; induces the caiTABCDE and fixABCX operons; DNA-binding transcriptional activator CaiF 33178..33678 Shigella flexneri 5 str. 8401 4210419 YP_687622.1 CDS caiE NC_008258.1 33764 34375 R involved in the synthesis of a cofactor required for carnitine dehydratase and carnitine racemase activities; carnitine operon protein CaiE complement(33764..34375) Shigella flexneri 5 str. 8401 4210420 YP_687623.1 CDS caiD NC_008258.1 34360 35253 R catalyzes the dehydration of L-carnitinyl-CoA to crotonobetainyl-CoA; carnitinyl-CoA dehydratase complement(34360..35253) Shigella flexneri 5 str. 8401 4210421 YP_687624.1 CDS caiC NC_008258.1 35274 36806 R Code: IQ; COG: COG0318; crotonobetaine/carnitine-CoA ligase complement(35274..36806) Shigella flexneri 5 str. 8401 4210422 YP_687625.1 CDS caiB NC_008258.1 36880 38097 R catalyzes formation of L-carnitinyl-CoA by transfering the CoA moiety from gamma-butyrobetainyl-CoA, also catalyzes the formation of crotonobetainyl-CoA by transfer of CoA from gamma-butyrobetainyl-CoA or L-carnitinyl-CoA to crotonobetaine; crotonobetainyl-CoA:carnitine CoA-transferase complement(36880..38097) Shigella flexneri 5 str. 8401 4210423 YP_687626.1 CDS caiA NC_008258.1 38226 39368 R catalyzes the reduction of crotonobetainyl-CoA to gamma-butyrobetainyl-CoA; crotonobetainyl-CoA dehydrogenase complement(38226..39368) Shigella flexneri 5 str. 8401 4210366 YP_687627.1 CDS caiT NC_008258.1 39399 40913 R catalyzes the exchange of L-carnitine for gamma-butyrobetaine in carnitine metabolism; L-carnitine/gamma-butyrobetaine antiporter complement(39399..40913) Shigella flexneri 5 str. 8401 4210367 YP_687628.1 CDS fixA NC_008258.1 41385 42155 D required for anaerobic carnitine reduction, may act to transfer electrons to crotonobetaine reductase; electron transfer flavoprotein FixA 41385..42155 Shigella flexneri 5 str. 8401 4210368 YP_687629.1 CDS fixC NC_008258.1 43162 44448 D electron transport; FAD/NAD(P)-binding domain; possibly part of an electron transfer system required for anaerobic carnitine reduction; oxidoreductase FixC 43162..44448 Shigella flexneri 5 str. 8401 4210370 YP_687630.1 CDS fixX NC_008258.1 44445 44732 D Code: C; COG: COG2440; ferredoxin 44445..44732 Shigella flexneri 5 str. 8401 4210371 YP_687631.1 CDS yaaU NC_008258.1 44791 46185 D Code: GEPR; COG: COG0477; transport protein 44791..46185 Shigella flexneri 5 str. 8401 4210372 YP_687632.1 CDS yabF NC_008258.1 46233 46763 D Required for full activity of KefC, a potassium-proton antiporter; glutathione-regulated potassium-efflux system ancillary protein KefF 46233..46763 Shigella flexneri 5 str. 8401 4210373 YP_687633.1 CDS kefC NC_008258.1 46756 48618 D transport system that facilitates potassium-efflux; glutathione-regulated potassium-efflux system protein KefC 46756..48618 Shigella flexneri 5 str. 8401 4210374 YP_687634.1 CDS folA NC_008258.1 48809 49288 D catalyzes the reduction of dihydrofolate to tetrahydrofolate; dihydrofolate reductase 48809..49288 Shigella flexneri 5 str. 8401 4210375 YP_687635.1 CDS apaH NC_008258.1 49366 50208 R hydrolyzes P(1),P(4)-bis(5'-adenosyl) tetraphosphate to form 2 ADP; diadenosine tetraphosphatase complement(49366..50208) Shigella flexneri 5 str. 8401 4210376 YP_687636.1 CDS apaG NC_008258.1 50215 50592 R protein associated with Co2+ and Mg2+ efflux; ApaG protein complement(50215..50592) Shigella flexneri 5 str. 8401 4210377 YP_687637.1 CDS ksgA NC_008258.1 50595 51416 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(50595..51416) Shigella flexneri 5 str. 8401 4210378 YP_687638.1 CDS pdxA NC_008258.1 51413 52402 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(51413..52402) Shigella flexneri 5 str. 8401 4210379 YP_687639.1 CDS surA NC_008258.1 52402 53688 R Chaperone involved in the folding of extracytoplasmic proteins, especially OmpA, OmpF and LamB; peptidyl-prolyl cis-trans isomerase SurA complement(52402..53688) Shigella flexneri 5 str. 8401 4210380 YP_687640.1 CDS imp NC_008258.1 53741 56095 R determines N-hexane tolerance and is involved in outer membrane permeability; organic solvent tolerance protein complement(53741..56095) Shigella flexneri 5 str. 8401 4210381 YP_687641.1 CDS djlA NC_008258.1 56350 57165 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 56350..57165 Shigella flexneri 5 str. 8401 4210382 YP_687642.1 CDS yabO NC_008258.1 57282 57941 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(57282..57941) Shigella flexneri 5 str. 8401 4210383 YP_687643.1 CDS hepA NC_008258.1 57953 60859 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(57953..60859) Shigella flexneri 5 str. 8401 4210384 YP_687644.1 CDS polB NC_008258.1 61024 63375 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(61024..63375) Shigella flexneri 5 str. 8401 4210385 YP_687645.1 CDS araD NC_008258.1 63450 64145 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(63450..64145) Shigella flexneri 5 str. 8401 4209884 YP_687646.1 CDS araA NC_008258.1 64345 65847 R catalyzes the formation of L-ribulose from L-arabinose in L-arabinose catabolism; L-arabinose isomerase complement(64345..65847) Shigella flexneri 5 str. 8401 4209885 YP_687647.1 CDS araB NC_008258.1 65858 67558 R catalyzes the phosphorylation of ribulose to ribulose 5-phosphate; ribulokinase complement(65858..67558) Shigella flexneri 5 str. 8401 4209886 YP_687648.1 CDS araC NC_008258.1 67897 68775 D 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 67897..68775 Shigella flexneri 5 str. 8401 4209887 YP_687649.1 CDS yabI NC_008258.1 68861 69625 D Code: S; COG: COG0586; hypothetical protein 68861..69625 Shigella flexneri 5 str. 8401 4209888 YP_687650.1 CDS thiQ NC_008258.1 69739 70437 R with TbpA and ThiP is part of the thiamine and TPP transport system; thiamine transporter ATP-binding subunit complement(69739..70437) Shigella flexneri 5 str. 8401 4209889 YP_687651.1 CDS thiP NC_008258.1 70421 72031 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(70421..72031) Shigella flexneri 5 str. 8401 4209890 YP_687652.1 CDS tbpA NC_008258.1 72007 72990 R part of the thiamine and TPP transport system tbpA-thiPQ; thiamine transporter substrate binding subunit complement(72007..72990) Shigella flexneri 5 str. 8401 4209891 YP_687653.1 CDS yabN NC_008258.1 73154 74809 R activates sgrS under glucose-phosphate stress conditions; transcriptional regulator SgrR complement(73154..74809) Shigella flexneri 5 str. 8401 4209892 YP_687654.1 CDS leuD NC_008258.1 76358 76963 R catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis; forms a heterodimer of LeuC/D; isopropylmalate isomerase small subunit complement(76358..76963) Shigella flexneri 5 str. 8401 4209894 YP_687655.1 CDS leuC NC_008258.1 76974 78374 R dehydratase component, catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; isopropylmalate isomerase large subunit complement(76974..78374) Shigella flexneri 5 str. 8401 4209895 YP_687656.2 CDS leuB NC_008258.1 78377 79468 R catalyzes the oxidation of 3-isopropylmalate to 3-carboxy-4-methyl-2-oxopentanoate in leucine biosynthesis; 3-isopropylmalate dehydrogenase complement(78377..79468) Shigella flexneri 5 str. 8401 4209896 YP_687657.1 CDS leuA NC_008258.1 79468 81039 R catalyzes the formation of 2-isopropylmalate from acetyl-CoA and 2-oxoisovalerate in leucine biosynthesis; 2-isopropylmalate synthase complement(79468..81039) Shigella flexneri 5 str. 8401 4209897 YP_687658.1 CDS leuO NC_008258.1 81702 82823 D activator for leuABCD operon; member of LysR family of transcriptional activators; leucine transcriptional activator 81702..82823 Shigella flexneri 5 str. 8401 4209898 YP_687659.2 CDS ilvI NC_008258.1 83141 84865 D catalyzes the formation of 2-acetolactate from pyruvate, leucine sensitive; acetolactate synthase 3 catalytic subunit 83141..84865 Shigella flexneri 5 str. 8401 4209899 YP_687660.1 CDS ilvH NC_008258.1 84868 85359 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 84868..85359 Shigella flexneri 5 str. 8401 4209900 YP_687662.1 CDS fruR NC_008258.1 85539 86543 D binds D-fructose as an inducer; involved in regulation of operons for central pathways of carbon metabolism; DNA-binding transcriptional regulator FruR 85539..86543 Shigella flexneri 5 str. 8401 4209902 YP_687663.1 CDS SFV_0072 NC_008258.1 86540 86785 R IS1 encoded protein complement(86540..86785) Shigella flexneri 5 str. 8401 4209864 YP_687664.1 CDS insB NC_008258.1 86860 87363 D Code: L; COG: COG1662; IS1 ORF2 86860..87363 Shigella flexneri 5 str. 8401 4209865 YP_687665.1 CDS yabB NC_008258.1 87922 88380 D MraZ; UPF0040; crystal structure shows similarity to AbrB; cell division protein MraZ 87922..88380 Shigella flexneri 5 str. 8401 4209866 YP_687666.1 CDS mraW NC_008258.1 88382 89323 D Code: M; COG: COG0275; S-adenosyl-methyltransferase MraW 88382..89323 Shigella flexneri 5 str. 8401 4209867 YP_687667.1 CDS ftsL NC_008258.1 89320 89685 D membrane bound cell division protein at septum containing leucine zipper motif; cell division protein FtsL 89320..89685 Shigella flexneri 5 str. 8401 4209868 YP_687668.1 CDS ftsI NC_008258.1 89701 91467 D Code: M; COG: COG0768; peptidoglycan synthetase 89701..91467 Shigella flexneri 5 str. 8401 4209869 YP_687669.1 CDS murE NC_008258.1 91454 92941 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 91454..92941 Shigella flexneri 5 str. 8401 4209870 YP_687670.1 CDS murF NC_008258.1 92938 94296 D Code: M; COG: COG0770; UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D- alanine ligase 92938..94296 Shigella flexneri 5 str. 8401 4209871 YP_687671.1 CDS mraY NC_008258.1 94290 95372 D First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan; phospho-N-acetylmuramoyl-pentapeptide- transferase 94290..95372 Shigella flexneri 5 str. 8401 4209872 YP_687672.1 CDS murD NC_008258.1 95375 96691 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 95375..96691 Shigella flexneri 5 str. 8401 4209873 YP_687673.1 CDS ftsW NC_008258.1 96691 97935 D integral membrane protein involved in stabilizing FstZ ring during cell division; cell division protein FtsW 96691..97935 Shigella flexneri 5 str. 8401 4209874 YP_687674.1 CDS murG NC_008258.1 97932 98999 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 97932..98999 Shigella flexneri 5 str. 8401 4209875 YP_687675.1 CDS murC NC_008258.1 99053 100528 D 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 99053..100528 Shigella flexneri 5 str. 8401 4209876 YP_687676.1 CDS ddl NC_008258.1 100521 101441 D 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 100521..101441 Shigella flexneri 5 str. 8401 4209877 YP_687677.1 CDS ftsQ NC_008258.1 101443 102273 D involved in septum formation; cell division protein FtsQ 101443..102273 Shigella flexneri 5 str. 8401 4209878 YP_687678.1 CDS ftsA NC_008258.1 102363 103532 D 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 102363..103532 Shigella flexneri 5 str. 8401 4209879 YP_687679.1 CDS ftsZ NC_008258.1 103593 104744 D GTPase; similar structure to tubulin; forms ring-shaped polymers at the site of cell division; other proteins such as FtsA, ZipA, and ZapA, interact with and regulate FtsZ function; cell division protein FtsZ 103593..104744 Shigella flexneri 5 str. 8401 4209880 YP_687680.1 CDS lpxC NC_008258.1 104845 105762 D 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 104845..105762 Shigella flexneri 5 str. 8401 4209881 YP_687681.1 CDS yacA NC_008258.1 105840 106505 D secM translational pause allows for the initiation of secA translation; SecA regulator SecM 105840..106505 Shigella flexneri 5 str. 8401 4209882 YP_687682.1 CDS secA NC_008258.1 106567 109272 D 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 106567..109272 Shigella flexneri 5 str. 8401 4209883 YP_687683.1 CDS mutT NC_008258.1 109332 109721 D Code: LR; COG: COG0494; nucleoside triphosphate pyrophosphohydrolase 109332..109721 Shigella flexneri 5 str. 8401 4207851 YP_687684.1 CDS yacG NC_008258.1 109821 110018 R Code: S; COG: COG3024; zinc-binding protein complement(109821..110018) Shigella flexneri 5 str. 8401 4207852 YP_687685.1 CDS yacF NC_008258.1 110028 110771 R Code: S; COG: COG4582; hypothetical protein complement(110028..110771) Shigella flexneri 5 str. 8401 4207853 YP_687686.1 CDS coaE NC_008258.1 110771 111391 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(110771..111391) Shigella flexneri 5 str. 8401 4207854 YP_687687.1 CDS guaC NC_008258.1 111616 112659 D catalyzes the NADPH-dependent deamination of GMP to inosine monophosphate; guanosine 5'-monophosphate oxidoreductase 111616..112659 Shigella flexneri 5 str. 8401 4207855 YP_687688.1 CDS hofC NC_008258.1 112694 113896 R Code: NU; COG: COG1459; type IV pilin biogenesis protein complement(112694..113896) Shigella flexneri 5 str. 8401 4207856 YP_687689.1 CDS ppdD NC_008258.1 115043 115483 R Code: NU; COG: COG4969; major pilin subunit complement(115043..115483) Shigella flexneri 5 str. 8401 4207858 YP_687690.1 CDS nadC NC_008258.1 115686 116579 R catalyzes the formation of pyridine-2,3-dicarboxylate and 5-phospho-alpha-D-ribose 1-diphosphate from nictinate D-ribonucleotide; quinolinate phosphoribosyltransferase complement(115686..116579) Shigella flexneri 5 str. 8401 4207859 YP_687691.1 CDS ampD NC_008258.1 116667 117218 D Code: V; COG: COG3023; N-acetyl-anhydromuranmyl-L-alanine amidase 116667..117218 Shigella flexneri 5 str. 8401 4207860 YP_687692.1 CDS ampE NC_008258.1 117215 118069 D involved in regulation of beta-lactamase; signaling protein; regulatory protein AmpE 117215..118069 Shigella flexneri 5 str. 8401 4207861 YP_687693.1 CDS aroP NC_008258.1 118112 119485 R Code: E; COG: COG1113; aromatic amino acid transporter complement(118112..119485) Shigella flexneri 5 str. 8401 4207862 YP_687694.1 CDS pdhR NC_008258.1 119993 120790 D activates lctPRD operon; autoregulates itself through repression of pdhR-aceEF-lpdA operon; regulates pyruvate dehydrogenase complex; transcriptional regulator PdhR 119993..120790 Shigella flexneri 5 str. 8401 4207863 YP_687695.1 CDS aceE NC_008258.1 120951 123614 D E1 component; part of pyruvate dehydrogenase; forms a complex with DlaT and LpdC; pyruvate dehydrogenase subunit E1 120951..123614 Shigella flexneri 5 str. 8401 4207864 YP_687696.1 CDS aceF NC_008258.1 123629 125509 D E2 component of pyruvate dehydrogenase multienzyme complex; in Escherichia coli AceF contains three N-terminal lipoyl domains; dihydrolipoamide acetyltransferase 123629..125509 Shigella flexneri 5 str. 8401 4207865 YP_687697.1 CDS lpdA NC_008258.1 125831 127258 D E3 component of pyruvate and 2-oxoglutarate dehydrogenase complex; catalyzes the oxidation of dihydrolipoamide to lipoamide; dihydrolipoamide dehydrogenase 125831..127258 Shigella flexneri 5 str. 8401 4207866 YP_687698.1 CDS yacH NC_008258.1 127329 129176 R hypothetical protein complement(127329..129176) Shigella flexneri 5 str. 8401 4207867 YP_687699.1 CDS acnB NC_008258.1 129510 132134 D catalyzes the conversion of citrate to isocitrate and the conversion of 2-methylaconitate to 2-methylisocitrate; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase 129510..132134 Shigella flexneri 5 str. 8401 4207868 YP_687700.1 CDS yacL NC_008258.1 132261 132671 D Code: S; COG: COG3112; hypothetical protein 132261..132671 Shigella flexneri 5 str. 8401 4207869 YP_687701.1 CDS speD NC_008258.1 132709 133503 R S-adenosylmethionine provides the aminopropyl moiety required for spermidine biosynthesis from putrescine; S-adenosylmethionine decarboxylase complement(132709..133503) Shigella flexneri 5 str. 8401 4210133 YP_687702.1 CDS speE NC_008258.1 133519 134385 R catalyzes the formation of spermidine from putrescine and S-adenosylmethioninamine; spermidine synthase complement(133519..134385) Shigella flexneri 5 str. 8401 4210134 YP_687703.1 CDS yacC NC_008258.1 134491 135009 R hypothetical protein complement(134491..135009) Shigella flexneri 5 str. 8401 4210136 YP_687704.1 CDS yacK NC_008258.1 135004 136554 D laccase; copper-stimulated phenoloxidase and ferroxidase which may be involved in copper detoxification; multicopper oxidase 135004..136554 Shigella flexneri 5 str. 8401 4210135 YP_687705.1 CDS gcd NC_008258.1 136601 139009 R Code: G; COG: COG4993; glucose dehydrogenase complement(136601..139009) Shigella flexneri 5 str. 8401 4210137 YP_687706.1 CDS hpt NC_008258.1 139134 139733 D Code: F; COG: COG0634; hypoxanthine-guanine phosphoribosyltransferase 139134..139733 Shigella flexneri 5 str. 8401 4210138 YP_687707.1 CDS yadF NC_008258.1 139774 140436 R catalyzes the interconversion of bicarbonate and carbon dioxide; carbonic anhydrase complement(139774..140436) Shigella flexneri 5 str. 8401 4210139 YP_687708.1 CDS yadG NC_008258.1 140620 141471 D Code: V; COG: COG1131; ABC transporter ATP-binding protein 140620..141471 Shigella flexneri 5 str. 8401 4210140 YP_687709.1 CDS yadH NC_008258.1 141468 142238 D Code: V; COG: COG0842; hypothetical protein 141468..142238 Shigella flexneri 5 str. 8401 4210141 YP_687710.1 CDS yadE NC_008258.1 142847 144076 D Code: G; COG: COG0726; hypothetical protein 142847..144076 Shigella flexneri 5 str. 8401 4210142 YP_687711.1 CDS panD NC_008258.1 144080 144460 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(144080..144460) Shigella flexneri 5 str. 8401 4210143 YP_687712.1 CDS yadD NC_008258.1 144734 145636 D Code: S; COG: COG5464; hypothetical protein 144734..145636 Shigella flexneri 5 str. 8401 4210144 YP_687713.1 CDS panC NC_008258.1 145710 146561 R catalyzes the formation of (R)-pantothenate from pantoate and beta-alanine; pantoate--beta-alanine ligase complement(145710..146561) Shigella flexneri 5 str. 8401 4210145 YP_687714.1 CDS panB NC_008258.1 146573 147367 R catalyzes the formation of tetrahydrofolate and 2-dehydropantoate from 5,10-methylenetetrahydrofolate and 3-methyl-2-oxobutanoate; 3-methyl-2-oxobutanoate hydroxymethyltransferase complement(146573..147367) Shigella flexneri 5 str. 8401 4210146 YP_687715.1 CDS SFV_0125 NC_008258.1 147480 147941 R hypothetical protein complement(147480..147941) Shigella flexneri 5 str. 8401 4210147 YP_687716.1 CDS insB NC_008258.1 148055 148558 D Code: L; COG: COG1662; IS1 ORF2 148055..148558 Shigella flexneri 5 str. 8401 4210148 YP_687717.1 CDS folK NC_008258.1 148706 149185 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(148706..149185) Shigella flexneri 5 str. 8401 4210149 YP_687718.1 CDS pcnB NC_008258.1 149182 150546 R Polymerase that creates the 3' poly(A) tail found in some mRNA's; poly(A) polymerase complement(149182..150546) Shigella flexneri 5 str. 8401 4210150 YP_687719.2 CDS yadB NC_008258.1 150639 151535 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(150639..151535) Shigella flexneri 5 str. 8401 4210151 YP_687720.1 CDS dksA NC_008258.1 151602 152057 R Code: T; COG: COG1734; RNA polymerase-binding transcription factor complement(151602..152057) Shigella flexneri 5 str. 8401 4210152 YP_687721.1 CDS sfsA NC_008258.1 152235 152939 R Regulatory factor involved in maltose metabolism; sugar fermentation stimulation protein A complement(152235..152939) Shigella flexneri 5 str. 8401 4209045 YP_687722.1 CDS yadP NC_008258.1 152954 153697 R Code: J; COG: COG1514; hypothetical protein complement(152954..153697) Shigella flexneri 5 str. 8401 4209047 YP_687723.1 CDS hrpB NC_008258.1 153558 155987 D similar in sequence to the ATP-dependent RNA helicase HrpA; ATP-dependent RNA helicase HrpB 153558..155987 Shigella flexneri 5 str. 8401 4209046 YP_687724.1 CDS mrcB NC_008258.1 156183 158717 D 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 156183..158717 Shigella flexneri 5 str. 8401 4209048 YP_687725.1 CDS fhuA NC_008258.1 159015 161180 D 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 159015..161180 Shigella flexneri 5 str. 8401 4209049 YP_687726.1 CDS fhuC NC_008258.1 161189 162028 D part of the FhuBCD ATP-dependent iron (III) hydroxamate transporter; iron-hydroxamate transporter ATP-binding subunit 161189..162028 Shigella flexneri 5 str. 8401 4209050 YP_687727.1 CDS fhuD NC_008258.1 162028 162918 D Part of the FhuBCD ATP-dependent iron (III) hydroxamate transporter; binds to all hydroxamate siderophores; iron-hydroxamate transporter substrate-binding subunit 162028..162918 Shigella flexneri 5 str. 8401 4209051 YP_687728.1 CDS fhuB NC_008258.1 162915 164897 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 162915..164897 Shigella flexneri 5 str. 8401 4209052 YP_687729.1 CDS hemL NC_008258.1 164932 166212 R Converts (S)-4-amino-5-oxopentanoate to 5-aminolevulinate during the porphyrin biosynthesis pathway; glutamate-1-semialdehyde aminotransferase complement(164932..166212) Shigella flexneri 5 str. 8401 4209053 YP_687730.1 CDS yadQ NC_008258.1 166437 167858 D Acts as an electrical shunt for an outwardly-directed proton pump that is linked to amino acid decarboxylation; chloride channel protein 166437..167858 Shigella flexneri 5 str. 8401 4209054 YP_687731.1 CDS yadR NC_008258.1 167940 168284 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 167940..168284 Shigella flexneri 5 str. 8401 4209055 YP_687732.1 CDS yadS NC_008258.1 168331 168954 R Code: S; COG: COG2860; hypothetical protein complement(168331..168954) Shigella flexneri 5 str. 8401 4209056 YP_687733.1 CDS yadT NC_008258.1 168992 169819 R solute binding component of the vitamin B12 transport system BtuCDF; vitamin B12-transporter protein BtuF complement(168992..169819) Shigella flexneri 5 str. 8401 4209057 YP_687734.1 CDS pfs NC_008258.1 169785 170483 R enables the cleavage of the glycosidic bond in both 5'-methylthioadenosine and S-adenosylhomocysteine; 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase complement(169785..170483) Shigella flexneri 5 str. 8401 4209058 YP_687735.1 CDS dgt NC_008258.1 170567 172084 D forms a homotetramer; requires magnesium for activity; catalyzes the hydrolysis of dGTP to form deoxyguanosine and triphosphate; deoxyguanosinetriphosphate triphosphohydrolase 170567..172084 Shigella flexneri 5 str. 8401 4209059 YP_687736.1 CDS htrA NC_008258.1 172214 173638 D heat shock protein HtrA; protease Do; required at high temperature; degrades damaged proteins; serine endoprotease 172214..173638 Shigella flexneri 5 str. 8401 4209060 YP_687737.1 CDS yaeH NC_008258.1 175026 175412 R hypothetical protein complement(175026..175412) Shigella flexneri 5 str. 8401 4209062 YP_687738.1 CDS dapD NC_008258.1 175726 176550 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(175726..176550) Shigella flexneri 5 str. 8401 4209063 YP_687739.1 CDS glnD NC_008258.1 176581 179253 R catalyzes the uridylylation or deuridylylation of the PII nitrogen regulatory protein; PII uridylyl-transferase complement(176581..179253) Shigella flexneri 5 str. 8401 4208382 YP_687740.2 CDS map NC_008258.1 179315 180109 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(179315..180109) Shigella flexneri 5 str. 8401 4208383 YP_687741.2 CDS rpsB NC_008258.1 180477 181202 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 180477..181202 Shigella flexneri 5 str. 8401 4208384 YP_687742.1 CDS tsf NC_008258.1 181460 182311 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 181460..182311 Shigella flexneri 5 str. 8401 4208385 YP_687743.1 CDS pyrH NC_008258.1 182458 183183 D Catalyzes the phosphorylation of UMP to UDP; uridylate kinase 182458..183183 Shigella flexneri 5 str. 8401 4208386 YP_687744.1 CDS frr NC_008258.1 183475 184032 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 183475..184032 Shigella flexneri 5 str. 8401 4208387 YP_687745.1 CDS yaeM NC_008258.1 184124 185320 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 184124..185320 Shigella flexneri 5 str. 8401 4208388 YP_687746.1 CDS yaeS NC_008258.1 185509 186267 D catalyzes the formation of undecaprenyl pyrophosphate from isopentenyl pyrophosphate; undecaprenyl pyrophosphate synthase 185509..186267 Shigella flexneri 5 str. 8401 4208389 YP_687747.1 CDS cdsA NC_008258.1 186310 187137 D catalyzes the synthesis of CDP-diglyceride from CTP and phosphatidate; CDP-diglyceride synthase 186310..187137 Shigella flexneri 5 str. 8401 4208390 YP_687748.1 CDS yaeL NC_008258.1 187149 188501 D catalyzes the cleavage of RseA which activates the sigmaE-mediated stress response; zinc metallopeptidase RseP 187149..188501 Shigella flexneri 5 str. 8401 4208391 YP_687749.1 CDS yaeT NC_008258.1 188531 190963 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 188531..190963 Shigella flexneri 5 str. 8401 4208392 YP_687750.1 CDS hlpA NC_008258.1 191085 191570 D Code: M; COG: COG2825; periplasmic chaperone 191085..191570 Shigella flexneri 5 str. 8401 4208393 YP_687751.1 CDS lpxD NC_008258.1 191610 192599 D 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 191610..192599 Shigella flexneri 5 str. 8401 4208394 YP_687752.1 CDS fabZ NC_008258.1 192611 193159 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 192611..193159 Shigella flexneri 5 str. 8401 4208395 YP_687753.1 CDS lpxA NC_008258.1 193163 193951 D catalyzes the addition of (R)-3-hydroxytetradecanoyl to the glucosamine disaccharide in lipid A biosynthesis; UDP-N-acetylglucosamine acyltransferase 193163..193951 Shigella flexneri 5 str. 8401 4208396 YP_687754.1 CDS lpxB NC_008258.1 193951 195099 D 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 193951..195099 Shigella flexneri 5 str. 8401 4208397 YP_687755.1 CDS rnhB NC_008258.1 195096 195692 D RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids; ribonuclease HII 195096..195692 Shigella flexneri 5 str. 8401 4208398 YP_687756.1 CDS dnaE NC_008258.1 195828 199211 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 195828..199211 Shigella flexneri 5 str. 8401 4208399 YP_687757.1 CDS accA NC_008258.1 199224 200183 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 199224..200183 Shigella flexneri 5 str. 8401 4208400 YP_687758.1 CDS ldcC NC_008258.1 200282 202423 D Code: E; COG: COG1982; lysine decarboxylase 2 200282..202423 Shigella flexneri 5 str. 8401 4208401 YP_687759.1 CDS yaeR NC_008258.1 202480 202869 D Code: E; COG: COG0346; hypothetical protein 202480..202869 Shigella flexneri 5 str. 8401 4209903 YP_687760.1 CDS yaeO NC_008258.1 204282 204542 R Suppresses temperature-sensitive mutations in essential genes by modulating rho-dependent transcription termination; Rho-binding antiterminator complement(204282..204542) Shigella flexneri 5 str. 8401 4209905 YP_687761.1 CDS yaeP NC_008258.1 204529 204729 R hypothetical protein complement(204529..204729) Shigella flexneri 5 str. 8401 4209906 YP_687762.1 CDS yaeQ NC_008258.1 204895 205440 D Code: S; COG: COG4681; hypothetical protein 204895..205440 Shigella flexneri 5 str. 8401 4209907 YP_687763.1 CDS yaeJ NC_008258.1 205437 205859 D Code: J; COG: COG1186; peptidyl-tRNA hydrolase domain-containing protein 205437..205859 Shigella flexneri 5 str. 8401 4209908 YP_687764.1 CDS cutF NC_008258.1 205873 206583 D Code: MP; COG: COG3015; lipoprotein involved with copper homeostasis and adhesion 205873..206583 Shigella flexneri 5 str. 8401 4209909 YP_687765.1 CDS yaeF NC_008258.1 206738 207571 R hypothetical protein complement(206738..207571) Shigella flexneri 5 str. 8401 4209910 YP_687766.2 CDS proS NC_008258.1 207615 209333 R catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro); prolyl-tRNA synthetase complement(207615..209333) Shigella flexneri 5 str. 8401 4209911 YP_687767.1 CDS yaeB NC_008258.1 209444 210151 R Code: S; COG: COG1720; hypothetical protein complement(209444..210151) Shigella flexneri 5 str. 8401 4209912 YP_687768.1 CDS rcsF NC_008258.1 210148 210552 R outer membrane lipoprotein complement(210148..210552) Shigella flexneri 5 str. 8401 4209913 YP_687769.1 CDS metQ NC_008258.1 210670 211485 R Code: P; COG: COG1464; DL-methionine transporter substrate-binding subunit complement(210670..211485) Shigella flexneri 5 str. 8401 4209914 YP_687770.1 CDS yaeE NC_008258.1 211525 212163 R part of the MetNIQ methionine uptake system; DL-methionine transporter permease subunit complement(211525..212163) Shigella flexneri 5 str. 8401 4209915 YP_687771.1 CDS metN NC_008258.1 212171 213202 R part of the metNIQ transport system for methionine; DL-methionine transporter ATP-binding subunit complement(212171..213202) Shigella flexneri 5 str. 8401 4209916 YP_687772.1 CDS yaeD NC_008258.1 213390 213965 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 213390..213965 Shigella flexneri 5 str. 8401 4209917 YP_687773.1 CDS dkgB NC_008258.1 219633 220436 D catalyzes the reduction of 2,5-diketo-D-gluconic acid to 2-keto-L-gulonic acid; 2,5-diketo-D-gluconate reductase B 219633..220436 Shigella flexneri 5 str. 8401 4208058 YP_687774.1 CDS SFV_0191 NC_008258.1 220475 221821 R Code: L; COG: COG3385; IS4 orf complement(220475..221821) Shigella flexneri 5 str. 8401 4208059 YP_687775.1 CDS yafC NC_008258.1 221871 222785 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(221871..222785) Shigella flexneri 5 str. 8401 4208060 YP_687776.1 CDS yafD NC_008258.1 223026 223826 D Code: S; COG: COG3021; hypothetical protein 223026..223826 Shigella flexneri 5 str. 8401 4208061 YP_687777.1 CDS yafE NC_008258.1 223904 224674 D Code: QR; COG: COG0500; biotin synthesis protein 223904..224674 Shigella flexneri 5 str. 8401 4208062 YP_687778.1 CDS mltD NC_008258.1 224722 226080 R 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(224722..226080) Shigella flexneri 5 str. 8401 4208063 YP_687779.1 CDS gloB NC_008258.1 226152 226907 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(226152..226907) Shigella flexneri 5 str. 8401 4208064 YP_687780.1 CDS yafS NC_008258.1 226941 227663 D Code: QR; COG: COG0500; hypothetical protein 226941..227663 Shigella flexneri 5 str. 8401 4208065 YP_687781.1 CDS rnhA NC_008258.1 227660 228238 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(227660..228238) Shigella flexneri 5 str. 8401 4208067 YP_687782.1 CDS dnaQ NC_008258.1 228183 228923 D 3'-5' exonuclease of DNA polymerase III; DNA polymerase III subunit epsilon 228183..228923 Shigella flexneri 5 str. 8401 4208066 YP_687783.1 CDS safA NC_008258.1 229263 230309 R Code: S; COG: COG3515; cytoplasmic protein complement(229263..230309) Shigella flexneri 5 str. 8401 4208069 YP_687784.1 CDS SFV_0202 NC_008258.1 230320 230832 R hypothetical protein complement(230320..230832) Shigella flexneri 5 str. 8401 4208070 YP_687785.1 CDS safB NC_008258.1 230987 231304 R periplasmic chaperone of fimbral assembly machinery complement(230987..231304) Shigella flexneri 5 str. 8401 4211030 YP_687786.1 CDS SFV_0205 NC_008258.1 233200 233694 R Code: S; COG: COG3518; cytoplasmic protein complement(233200..233694) Shigella flexneri 5 str. 8401 4211032 YP_687787.1 CDS sat1 NC_008258.1 233889 234521 R Code: R; COG: COG4455; cytoplasmic protein complement(233889..234521) Shigella flexneri 5 str. 8401 4211033 YP_687788.1 CDS sat2 NC_008258.1 234508 234885 R cytoplasmic protein complement(234508..234885) Shigella flexneri 5 str. 8401 4211034 YP_687789.1 CDS SFV_0208 NC_008258.1 235520 235885 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 235520..235885 Shigella flexneri 5 str. 8401 4211035 YP_687790.1 CDS SFV_0209 NC_008258.1 235909 236748 D Code: L; COG: COG2801; IS2 ORF2 235909..236748 Shigella flexneri 5 str. 8401 4211036 YP_687791.1 CDS SFV_0210 NC_008258.1 236805 237323 R hypothetical protein complement(236805..237323) Shigella flexneri 5 str. 8401 4211037 YP_687792.1 CDS SFV_0211 NC_008258.1 237311 237778 R endopeptidase complement(237311..237778) Shigella flexneri 5 str. 8401 4211038 YP_687793.1 CDS SFV_0212 NC_008258.1 237775 238308 R Code: R; COG: COG3772; lysozyme complement(237775..238308) Shigella flexneri 5 str. 8401 4211039 YP_687794.1 CDS SFV_0213 NC_008258.1 238374 238934 R hypothetical protein complement(238374..238934) Shigella flexneri 5 str. 8401 4211040 YP_687795.1 CDS SFV_0214 NC_008258.1 239008 239223 R hypothetical protein complement(239008..239223) Shigella flexneri 5 str. 8401 4211041 YP_687796.1 CDS SFV_0215 NC_008258.1 239978 241117 R hypothetical protein complement(239978..241117) Shigella flexneri 5 str. 8401 4211042 YP_687797.1 CDS SFV_0216 NC_008258.1 241219 241629 R hypothetical protein complement(241219..241629) Shigella flexneri 5 str. 8401 4211043 YP_687798.1 CDS SFV_0217 NC_008258.1 242362 242664 D Code: L; COG: COG2963; IS911 ORF1 242362..242664 Shigella flexneri 5 str. 8401 4211044 YP_687799.1 CDS SFV_0218 NC_008258.1 242965 243531 D IS911 ORF2 242965..243531 Shigella flexneri 5 str. 8401 4211045 YP_687800.1 CDS SFV_0219 NC_008258.1 243525 244589 D Code: R; COG: COG5565; terminase large subunit 243525..244589 Shigella flexneri 5 str. 8401 4211046 YP_687801.1 CDS SFV_0220 NC_008258.1 244590 246755 D packaging glycoprotein 244590..246755 Shigella flexneri 5 str. 8401 4211047 YP_687802.1 CDS SFV_0221 NC_008258.1 246769 247680 D scaffolding protein 246769..247680 Shigella flexneri 5 str. 8401 4211048 YP_687803.1 CDS SFV_0222 NC_008258.1 247680 248975 D coat protein 247680..248975 Shigella flexneri 5 str. 8401 4211082 YP_687804.1 CDS SFV_0223 NC_008258.1 248972 249244 D hypothetical protein 248972..249244 Shigella flexneri 5 str. 8401 4211083 YP_687805.1 CDS SFV_0224 NC_008258.1 249222 249722 D DNA stabilization protein 249222..249722 Shigella flexneri 5 str. 8401 4211084 YP_687806.1 CDS SFV_0225 NC_008258.1 249723 251141 D packaged DNA stabilization protein 249723..251141 Shigella flexneri 5 str. 8401 4211085 YP_687807.1 CDS SFV_0226 NC_008258.1 251141 251989 D packaged DNA stabilization protein 251141..251989 Shigella flexneri 5 str. 8401 4211086 YP_687808.1 CDS SFV_0227 NC_008258.1 251989 252444 D head assembly protein 251989..252444 Shigella flexneri 5 str. 8401 4211087 YP_687809.1 CDS SFV_0228 NC_008258.1 252447 253139 D DNA transfer protein 252447..253139 Shigella flexneri 5 str. 8401 4211088 YP_687810.1 CDS SFV_0229 NC_008258.1 253149 254480 D prophage DNA injection protein 253149..254480 Shigella flexneri 5 str. 8401 4211089 YP_687811.1 CDS SFV_0230 NC_008258.1 254481 256211 D DNA transfer protein 254481..256211 Shigella flexneri 5 str. 8401 4211090 YP_687812.1 CDS SFV_0231 NC_008258.1 256337 256663 D Code: L; COG: COG2963; IS629 ORF1 256337..256663 Shigella flexneri 5 str. 8401 4211091 YP_687813.1 CDS SFV_0232 NC_008258.1 256663 257550 D Code: L; COG: COG2801; IS629 ORF2 256663..257550 Shigella flexneri 5 str. 8401 4211092 YP_687814.1 CDS SFV_0233 NC_008258.1 257596 258033 R IS600 ORF2 complement(257596..258033) Shigella flexneri 5 str. 8401 4211093 YP_687815.1 CDS SFV_0234 NC_008258.1 258069 258371 R Code: L; COG: COG2963; IS600 ORF1 complement(258069..258371) Shigella flexneri 5 str. 8401 4211094 YP_687816.1 CDS SFV_0235 NC_008258.1 258523 258855 D terminase 258523..258855 Shigella flexneri 5 str. 8401 4211095 YP_687817.1 CDS ymfR NC_008258.1 258867 259049 D hypothetical protein 258867..259049 Shigella flexneri 5 str. 8401 4211096 YP_687818.1 CDS SFV_0237 NC_008258.1 259049 260290 D portal protein 259049..260290 Shigella flexneri 5 str. 8401 4211097 YP_687819.1 CDS SFV_0238 NC_008258.1 260268 260918 D Code: R; COG: COG3740; prohead protease 260268..260918 Shigella flexneri 5 str. 8401 4211098 YP_687820.1 CDS SFV_0239 NC_008258.1 260933 262138 D Code: R; COG: COG4653; bacteriophage protein 260933..262138 Shigella flexneri 5 str. 8401 4211099 YP_687821.1 CDS SFV_0240 NC_008258.1 262188 262388 D bacteriophage protein 262188..262388 Shigella flexneri 5 str. 8401 4211100 YP_687822.1 CDS SFV_0241 NC_008258.1 262391 262714 D bacteriophage protein 262391..262714 Shigella flexneri 5 str. 8401 4211101 YP_687823.1 CDS SFV_0242 NC_008258.1 262711 263121 D bacteriophage protein 262711..263121 Shigella flexneri 5 str. 8401 4210153 YP_687824.1 CDS SFV_0243 NC_008258.1 263096 263602 D bacteriophage protein 263096..263602 Shigella flexneri 5 str. 8401 4210154 YP_687825.1 CDS SFV_0244 NC_008258.1 263599 264159 D bacteriophage protein 263599..264159 Shigella flexneri 5 str. 8401 4210155 YP_687826.1 CDS SFV_0245 NC_008258.1 264322 265818 D Code: R; COG: COG4386; sheath protein 264322..265818 Shigella flexneri 5 str. 8401 4210156 YP_687827.1 CDS SFV_0246 NC_008258.1 265818 266174 D hypothetical protein 265818..266174 Shigella flexneri 5 str. 8401 4210157 YP_687828.1 CDS SFV_0247 NC_008258.1 266174 266443 D bacteriophage protein 266174..266443 Shigella flexneri 5 str. 8401 4210158 YP_687829.1 CDS SFV_0248 NC_008258.1 266585 268420 D tail protein 266585..268420 Shigella flexneri 5 str. 8401 4210159 YP_687830.1 CDS SFV_0249 NC_008258.1 268481 269809 D tail/DNA circulation protein 268481..269809 Shigella flexneri 5 str. 8401 4210160 YP_687831.1 CDS SFV_0250 NC_008258.1 269806 270885 D Code: R; COG: COG4379; tail protein 269806..270885 Shigella flexneri 5 str. 8401 4210161 YP_687832.1 CDS SFV_0251 NC_008258.1 270885 271433 D tail protein 270885..271433 Shigella flexneri 5 str. 8401 4210162 YP_687833.1 CDS SFV_0252 NC_008258.1 271433 271858 D Code: S; COG: COG4381; tail protein 271433..271858 Shigella flexneri 5 str. 8401 4210163 YP_687834.1 CDS SFV_0253 NC_008258.1 271845 272903 D Code: S; COG: COG3299; hypothetical protein 271845..272903 Shigella flexneri 5 str. 8401 4210164 YP_687835.1 CDS SFV_0254 NC_008258.1 272894 273478 D Code: S; COG: COG3778; hypothetical protein 272894..273478 Shigella flexneri 5 str. 8401 4210165 YP_687836.1 CDS SFV_0255 NC_008258.1 274041 274544 D phage tail fiber protein 274041..274544 Shigella flexneri 5 str. 8401 4210166 YP_687837.1 CDS gtrV NC_008258.1 274667 275920 R serotype-specific glucosyl transferase complement(274667..275920) Shigella flexneri 5 str. 8401 4210167 YP_687838.1 CDS gtrB NC_008258.1 275917 276840 R Code: M; COG: COG0463; bactoprenol glucosyl transferase complement(275917..276840) Shigella flexneri 5 str. 8401 4210168 YP_687839.1 CDS gtra NC_008258.1 276837 277199 R bactoprenol-linked glucose translocase complement(276837..277199) Shigella flexneri 5 str. 8401 4210169 YP_687840.1 CDS SFV_0259 NC_008258.1 277461 278621 R Code: L; COG: COG0582; integrase complement(277461..278621) Shigella flexneri 5 str. 8401 4210170 YP_687841.1 CDS SFV_0260 NC_008258.1 279662 280501 R bacteriophage protein complement(279662..280501) Shigella flexneri 5 str. 8401 4210171 YP_687842.1 CDS SFV_0261 NC_008258.1 280503 281159 R bacteriophage protein complement(280503..281159) Shigella flexneri 5 str. 8401 4210172 YP_687843.1 CDS SFV_0262 NC_008258.1 281146 281463 R hypothetical protein complement(281146..281463) Shigella flexneri 5 str. 8401 4210173 YP_687844.1 CDS SFV_0263 NC_008258.1 281566 281922 R bacteriophage protein complement(281566..281922) Shigella flexneri 5 str. 8401 4210174 YP_687845.1 CDS SFV_0264 NC_008258.1 282426 282908 R hypothetical protein complement(282426..282908) Shigella flexneri 5 str. 8401 4210175 YP_687846.1 CDS SFV_0265 NC_008258.1 282892 283794 R phage-related DNA recombination protein complement(282892..283794) Shigella flexneri 5 str. 8401 4210176 YP_687847.1 CDS SFV_0266 NC_008258.1 283791 284099 R hypothetical protein complement(283791..284099) Shigella flexneri 5 str. 8401 4210177 YP_687848.1 CDS SFV_0267 NC_008258.1 284251 284493 R IS1 encoded protein complement(284251..284493) Shigella flexneri 5 str. 8401 4210178 YP_687849.1 CDS insB NC_008258.1 284568 285071 D Code: L; COG: COG1662; IS1 ORF2 284568..285071 Shigella flexneri 5 str. 8401 4210179 YP_687850.1 CDS SFV_0269 NC_008258.1 286308 286631 R bacteriophage protein complement(286308..286631) Shigella flexneri 5 str. 8401 4210180 YP_687851.1 CDS SFV_0270 NC_008258.1 287337 287969 R Code: KT; COG: COG1974; prophage repressor CI complement(287337..287969) Shigella flexneri 5 str. 8401 4210181 YP_687852.1 CDS SFV_0271 NC_008258.1 288369 289715 R Code: L; COG: COG3385; IS4 orf complement(288369..289715) Shigella flexneri 5 str. 8401 4210182 YP_687853.1 CDS SFV_0272 NC_008258.1 290308 291132 D replication protein O 290308..291132 Shigella flexneri 5 str. 8401 4210183 YP_687854.1 CDS SFV_0273 NC_008258.1 291122 292558 D Code: L; COG: COG0305; replication protein P 291122..292558 Shigella flexneri 5 str. 8401 4210184 YP_687855.1 CDS SFV_0274 NC_008258.1 293591 293821 D hypothetical protein 293591..293821 Shigella flexneri 5 str. 8401 4210185 YP_687856.1 CDS SFV_0275 NC_008258.1 293814 294536 D DNA-binding protein Roi of bacteriophage BP-933W 293814..294536 Shigella flexneri 5 str. 8401 4210186 YP_687857.1 CDS SFV_0276 NC_008258.1 294823 295185 D Code: L; COG: COG4570; crossover junction endodeoxyribonuclease 294823..295185 Shigella flexneri 5 str. 8401 4210187 YP_687858.1 CDS SFV_0277 NC_008258.1 295367 295990 D antitermination protein 295367..295990 Shigella flexneri 5 str. 8401 4210188 YP_687859.1 CDS SFV_0278 NC_008258.1 296659 296982 D cell lysis protein 296659..296982 Shigella flexneri 5 str. 8401 4210189 YP_687860.1 CDS SFV_0279 NC_008258.1 296966 297292 D Code: G; COG: COG4678; endolysin 296966..297292 Shigella flexneri 5 str. 8401 4210190 YP_687861.1 CDS SFV_0280 NC_008258.1 297440 297877 D endopeptidase 297440..297877 Shigella flexneri 5 str. 8401 4210191 YP_687862.1 CDS SFV_0281 NC_008258.1 298079 298600 D bacteriophage protein 298079..298600 Shigella flexneri 5 str. 8401 4210192 YP_687863.1 CDS SFV_0282 NC_008258.1 299117 299419 D Code: L; COG: COG2963; IS600 ORF1 299117..299419 Shigella flexneri 5 str. 8401 4210193 YP_687864.1 CDS SFV_0283 NC_008258.1 299560 300273 D Code: L; COG: COG2801; IS600 ORF2 299560..300273 Shigella flexneri 5 str. 8401 4210194 YP_687865.1 CDS proA NC_008258.1 300880 302133 R Catalyzes the phosphorylation of L-glutamate during the proline biosynthesis pathway; gamma-glutamyl phosphate reductase complement(300880..302133) Shigella flexneri 5 str. 8401 4210196 YP_687866.1 CDS proB NC_008258.1 302145 303248 R catalyzes the formation of glutamate 5-phosphate from glutamate in proline biosynthesis; gamma-glutamyl kinase complement(302145..303248) Shigella flexneri 5 str. 8401 4210197 YP_687867.1 CDS insB NC_008258.1 303439 303942 R Code: L; COG: COG1662; IS1 ORF2 complement(303439..303942) Shigella flexneri 5 str. 8401 4210198 YP_687868.1 CDS SFV_0288 NC_008258.1 304017 304211 D IS1 encoded protein 304017..304211 Shigella flexneri 5 str. 8401 4210199 YP_687869.1 CDS phoE NC_008258.1 304312 305367 D Code: M; COG: COG3203; outer membrane phosphoporin protein E 304312..305367 Shigella flexneri 5 str. 8401 4210200 YP_687870.1 CDS crl NC_008258.1 305406 305807 R involved in the expression of csgBA which is involved in curli formation; interacts with sigmaS; DNA-binding transcriptional regulator Crl complement(305406..305807) Shigella flexneri 5 str. 8401 4210201 YP_687871.1 CDS frsA NC_008258.1 305865 307109 R forms a 1:1 complex with the unphosphorylated from of enzyme IIAGlc; FrsA may promote fermentation; fermentation/respiration switch protein complement(305865..307109) Shigella flexneri 5 str. 8401 4210202 YP_687872.1 CDS gpt NC_008258.1 307201 307659 R catalyzes the conversion of guanine, xanthine and, to a lesser extent, hypoxanthine to GMP, XMP and IMP, respectively; xanthine-guanine phosphoribosyltransferase complement(307201..307659) Shigella flexneri 5 str. 8401 4210203 YP_687873.1 CDS pepD NC_008258.1 307921 309378 D Code: E; COG: COG2195; aminoacyl-histidine dipeptidase 307921..309378 Shigella flexneri 5 str. 8401 4210204 YP_687874.1 CDS SFV_0295 NC_008258.1 310111 311181 R mutations in this gene result in a compromised ability for drug-inducible mexXY expression; expression is inducible by the same ribosome-targeting agents that induce mexXY; hypothetical protein complement(310111..311181) Shigella flexneri 5 str. 8401 4210206 YP_687875.1 CDS yafP NC_008258.1 311400 311852 R Code: KR; COG: COG0454; hypothetical protein complement(311400..311852) Shigella flexneri 5 str. 8401 4210207 YP_687876.1 CDS yafO NC_008258.1 311862 312260 R YafO overproduction induces toxicity; it is believed to be the toxin of a toxin-antitoxin pair; unknown function; toxin YafO complement(311862..312260) Shigella flexneri 5 str. 8401 4210208 YP_687877.1 CDS yafN NC_008258.1 312263 312556 R Code: D; COG: COG2161; antitoxin of the YafO-YafN toxin-antitoxin system complement(312263..312556) Shigella flexneri 5 str. 8401 4210209 YP_687878.1 CDS dinP NC_008258.1 312608 313612 R tRNA synthetase; involved in translesion DNA polymerization with beta clamp of polymerase III; belongs to Y family of polymerases; does not contain proofreading function; DNA polymerase IV complement(312608..313612) Shigella flexneri 5 str. 8401 4210210 YP_687879.1 CDS mbhA NC_008258.1 313734 314519 R Code: N; COG: COG1360; hypothetical protein complement(313734..314519) Shigella flexneri 5 str. 8401 4210212 YP_687880.1 CDS fhiA NC_008258.1 314464 316203 D Code: NU; COG: COG1298; flagellar biosynthetic protein FlhA 314464..316203 Shigella flexneri 5 str. 8401 4210211 YP_687881.1 CDS yafM NC_008258.1 316420 316917 R Code: L; COG: COG1943; hypothetical protein complement(316420..316917) Shigella flexneri 5 str. 8401 4210213 YP_687882.1 CDS yafL NC_008258.1 317093 317647 R Code: M; COG: COG0791; lipoprotein complement(317093..317647) Shigella flexneri 5 str. 8401 4210214 YP_687883.1 CDS yafK NC_008258.1 317998 318738 D Code: S; COG: COG3034; hypothetical protein 317998..318738 Shigella flexneri 5 str. 8401 4210215 YP_687884.1 CDS yafJ NC_008258.1 318709 319476 R Code: R; COG: COG0121; amidotransferase complement(318709..319476) Shigella flexneri 5 str. 8401 4210216 YP_687885.1 CDS gmhA NC_008258.1 319682 320422 R catalyzes the isomerization of sedoheptulose 7-phosphate to D-glycero-D-manno-heptose 7-phosphate; phosphoheptose isomerase complement(319682..320422) Shigella flexneri 5 str. 8401 4210217 YP_687886.1 CDS fadE NC_008258.1 320500 322944 D functions in fatty acid oxidation; converts acyl-CoA and FAD to FADH2 and delta2-enoyl-CoA; acyl-CoA dehydrogenase 320500..322944 Shigella flexneri 5 str. 8401 4210218 YP_687887.1 CDS ykfE NC_008258.1 322987 323460 R inactivates vertebrate C-type lysozyme; C-lysozyme inhibitor complement(322987..323460) Shigella flexneri 5 str. 8401 4210219 YP_687888.1 CDS yafV NC_008258.1 323617 324387 D Code: R; COG: COG0388; hypothetical protein 323617..324387 Shigella flexneri 5 str. 8401 4210220 YP_687889.1 CDS SFV_0310 NC_008258.1 325436 326230 R Rhs family protein complement(325436..326230) Shigella flexneri 5 str. 8401 4210221 YP_687890.1 CDS SFV_0311 NC_008258.1 326422 328734 R Rhs family protein complement(326422..328734) Shigella flexneri 5 str. 8401 4210222 YP_687891.1 CDS SFV_0312 NC_008258.1 328896 329303 R Rhs family protein complement(328896..329303) Shigella flexneri 5 str. 8401 4210223 YP_687892.1 CDS SFV_0313 NC_008258.1 329325 329771 R Code: S; COG: COG5435; cytoplasmic protein complement(329325..329771) Shigella flexneri 5 str. 8401 4210224 YP_687893.1 CDS SFV_0314 NC_008258.1 329794 332007 R Code: S; COG: COG3501; Rhs family protein complement(329794..332007) Shigella flexneri 5 str. 8401 4210225 YP_687894.1 CDS insB NC_008258.1 333085 333588 R Code: L; COG: COG1662; IS1 ORF2 complement(333085..333588) Shigella flexneri 5 str. 8401 4210226 YP_687895.1 CDS SFV_0316 NC_008258.1 333663 333878 D IS1 encoded protein 333663..333878 Shigella flexneri 5 str. 8401 4210227 YP_687896.1 CDS ykgE NC_008258.1 334201 334920 D Code: C; COG: COG0247; dehydrogenase subunit 334201..334920 Shigella flexneri 5 str. 8401 4210228 YP_687897.1 CDS ykgF NC_008258.1 334931 336358 D Code: C; COG: COG1139; hypothetical protein 334931..336358 Shigella flexneri 5 str. 8401 4210229 YP_687898.1 CDS ykgG NC_008258.1 336351 337046 D Code: S; COG: COG1556; transporter 336351..337046 Shigella flexneri 5 str. 8401 4206840 YP_687899.1 CDS SFV_0320 NC_008258.1 337001 337213 R hypothetical protein complement(337001..337213) Shigella flexneri 5 str. 8401 4206841 YP_687900.1 CDS ykgH NC_008258.1 337289 337957 R hypothetical protein complement(337289..337957) Shigella flexneri 5 str. 8401 4206842 YP_687901.1 CDS betA NC_008258.1 338171 339841 R a flavoprotein; catalyzes the oxidation of choline to betaine aldehyde and betain aldehyde to glycine betaine; choline dehydrogenase complement(338171..339841) Shigella flexneri 5 str. 8401 4206843 YP_687902.1 CDS betB NC_008258.1 339855 341327 R catalyzes the formation of betaine from betaine aldehyde; betaine aldehyde dehydrogenase complement(339855..341327) Shigella flexneri 5 str. 8401 4206844 YP_687903.1 CDS betI NC_008258.1 341341 341928 R HTH-type; bet1; Repressor involved in choline regulation of the bet genes; transcriptional regulator BetI complement(341341..341928) Shigella flexneri 5 str. 8401 4206845 YP_687904.1 CDS betT NC_008258.1 342056 344089 D proton-motive-force-driven choline transporter; choline transport protein BetT 342056..344089 Shigella flexneri 5 str. 8401 4206846 YP_687905.1 CDS SFV_0326 NC_008258.1 344232 344423 R IS1 encoded protein complement(344232..344423) Shigella flexneri 5 str. 8401 4206847 YP_687906.1 CDS insB NC_008258.1 344498 345001 D Code: L; COG: COG1662; IS1 ORF2 344498..345001 Shigella flexneri 5 str. 8401 4206848 YP_687907.1 CDS SFV_0328 NC_008258.1 345115 347208 R Code: L; COG: COG2801; phage transposase complement(345115..347208) Shigella flexneri 5 str. 8401 4206849 YP_687908.1 CDS tauA NC_008258.1 348610 349380 D Code: P; COG: COG4521; taurine ABC transporter substrate-binding protein 348610..349380 Shigella flexneri 5 str. 8401 4206850 YP_687909.1 CDS tauB NC_008258.1 349393 350160 D Part of the ABC transporter complex tauABC involved in taurine import; taurine ABC transporter ATP-binding protein 349393..350160 Shigella flexneri 5 str. 8401 4206851 YP_687910.1 CDS tauC NC_008258.1 350157 350984 D Code: P; COG: COG0600; taurine transporter subunit 350157..350984 Shigella flexneri 5 str. 8401 4206852 YP_687911.1 CDS tauD NC_008258.1 350981 351832 D 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 350981..351832 Shigella flexneri 5 str. 8401 4206853 YP_687912.1 CDS hemB NC_008258.1 351938 352945 R catalyzes the formation of porphobilinogen from 5-aminolevulinate; delta-aminolevulinic acid dehydratase complement(351938..352945) Shigella flexneri 5 str. 8401 4206854 YP_687913.1 CDS SFV_0335 NC_008258.1 353899 354264 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 353899..354264 Shigella flexneri 5 str. 8401 4206856 YP_687914.1 CDS SFV_0336 NC_008258.1 354288 355001 D Code: L; COG: COG2801; IS2 ORF2 354288..355001 Shigella flexneri 5 str. 8401 4206857 YP_687915.1 CDS SFV_0337 NC_008258.1 355207 356019 D Code: L; COG: COG2801; ISEhe3 orfB 355207..356019 Shigella flexneri 5 str. 8401 4206858 YP_687916.1 CDS yaiV NC_008258.1 356609 357157 D hypothetical protein 356609..357157 Shigella flexneri 5 str. 8401 4209173 YP_687917.1 CDS yaiH NC_008258.1 357158 358315 R this protein has no known enzymatic function; beta-lactam binding protein AmpH complement(357158..358315) Shigella flexneri 5 str. 8401 4209174 YP_687918.1 CDS sbmA NC_008258.1 358667 359887 D 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; transport protein 358667..359887 Shigella flexneri 5 str. 8401 4209175 YP_687919.1 CDS yaiW NC_008258.1 359900 360994 D hypothetical protein 359900..360994 Shigella flexneri 5 str. 8401 4209176 YP_687920.1 CDS SFV_0342 NC_008258.1 361053 361361 R hypothetical protein complement(361053..361361) Shigella flexneri 5 str. 8401 4209177 YP_687921.1 CDS SFV_0343 NC_008258.1 361489 361833 D hypothetical protein 361489..361833 Shigella flexneri 5 str. 8401 4209178 YP_687922.1 CDS ddl NC_008258.1 361857 362897 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(361857..362897) Shigella flexneri 5 str. 8401 4209179 YP_687923.1 CDS yaiB NC_008258.1 363414 363674 D hypothetical protein 363414..363674 Shigella flexneri 5 str. 8401 4209180 YP_687924.1 CDS phoA NC_008258.1 363775 365190 D Code: P; COG: COG1785; alkaline phosphatase 363775..365190 Shigella flexneri 5 str. 8401 4209181 YP_687925.1 CDS psiF NC_008258.1 365291 365629 D hypothetical protein 365291..365629 Shigella flexneri 5 str. 8401 4209182 YP_687926.1 CDS SFV_0348 NC_008258.1 365680 366567 R Code: L; COG: COG2801; IS629 ORF2 complement(365680..366567) Shigella flexneri 5 str. 8401 4209183 YP_687927.1 CDS SFV_0349 NC_008258.1 366567 366893 R Code: L; COG: COG2963; IS629 ORF1 complement(366567..366893) Shigella flexneri 5 str. 8401 4209184 YP_687928.1 CDS adrA NC_008258.1 367044 368159 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 367044..368159 Shigella flexneri 5 str. 8401 4209185 YP_687929.1 CDS proC NC_008258.1 368176 368985 R catalyzes the formation of L-proline from pyrroline-5-carboxylate; pyrroline-5-carboxylate reductase complement(368176..368985) Shigella flexneri 5 str. 8401 4209186 YP_687930.1 CDS yaiI NC_008258.1 368985 369563 D Code: S; COG: COG1671; hypothetical protein 368985..369563 Shigella flexneri 5 str. 8401 4209187 YP_687931.1 CDS aroL NC_008258.1 369746 370270 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 II 369746..370270 Shigella flexneri 5 str. 8401 4209188 YP_687932.1 CDS yaiA NC_008258.1 370320 370511 D hypothetical protein 370320..370511 Shigella flexneri 5 str. 8401 4209189 YP_687933.1 CDS aroM NC_008258.1 370769 371446 D hypothetical protein 370769..371446 Shigella flexneri 5 str. 8401 4209190 YP_687934.1 CDS yaiE NC_008258.1 371518 371802 D Code: S; COG: COG3123; hypothetical protein 371518..371802 Shigella flexneri 5 str. 8401 4209191 YP_687935.1 CDS SFV_0357 NC_008258.1 372011 372292 D hypothetical protein 372011..372292 Shigella flexneri 5 str. 8401 4209192 YP_687936.1 CDS SFV_0358 NC_008258.1 372289 372744 D hypothetical protein 372289..372744 Shigella flexneri 5 str. 8401 4209806 YP_687937.2 CDS rdgC NC_008258.1 372822 373733 R Required for efficient pilin antigenic variation; recombination associated protein complement(372822..373733) Shigella flexneri 5 str. 8401 4209808 YP_687938.1 CDS yajF NC_008258.1 373720 374766 D catalyzes phosphorylation of fructose; cytosolic enzyme; fructokinase 373720..374766 Shigella flexneri 5 str. 8401 4209807 YP_687939.1 CDS araJ NC_008258.1 374909 376186 R 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(374909..376186) Shigella flexneri 5 str. 8401 4209809 YP_687940.1 CDS sbcC NC_008258.1 376216 379359 R with SbcD cleaves DNA hairpin structures; also has 5' single-strand endonuclease activity; exonuclease SbcC complement(376216..379359) Shigella flexneri 5 str. 8401 4209810 YP_687941.1 CDS sbcD NC_008258.1 379356 380558 R with SbcC cleaves DNA hairpin structure, also has 5' single-strand endonuclease activity; exonuclease SbcD complement(379356..380558) Shigella flexneri 5 str. 8401 4209811 YP_687942.1 CDS phoB NC_008258.1 380748 381437 D two component response regulator for the phosphate regulon; PhoR phosphorylates PhoB; transcriptional regulator PhoB 380748..381437 Shigella flexneri 5 str. 8401 4209812 YP_687943.1 CDS phoR NC_008258.1 381495 382790 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 381495..382790 Shigella flexneri 5 str. 8401 4209813 YP_687944.1 CDS brnQ NC_008258.1 383197 384516 D Code: E; COG: COG1114; branched chain amino acid ABC transporter carrier protein 383197..384516 Shigella flexneri 5 str. 8401 4209814 YP_687945.1 CDS proY NC_008258.1 384592 385965 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 384592..385965 Shigella flexneri 5 str. 8401 4209815 YP_687946.1 CDS malZ NC_008258.1 386124 387938 D Code: G; COG: COG0366; maltodextrin glucosidase 386124..387938 Shigella flexneri 5 str. 8401 4209816 YP_687947.1 CDS queA NC_008258.1 388609 389679 D Synthesizes oQ from preQ1 in a single S-adenosylmethionine-requiring step; S-adenosylmethionine:tRNA ribosyltransferase-isomerase 388609..389679 Shigella flexneri 5 str. 8401 4209818 YP_687948.1 CDS tgt NC_008258.1 389734 390861 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 389734..390861 Shigella flexneri 5 str. 8401 4209819 YP_687949.1 CDS yajC NC_008258.1 390884 391216 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 390884..391216 Shigella flexneri 5 str. 8401 4209820 YP_687950.2 CDS secD NC_008258.1 391244 393091 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 391244..393091 Shigella flexneri 5 str. 8401 4209821 YP_687951.1 CDS secF NC_008258.1 393102 394073 D 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 393102..394073 Shigella flexneri 5 str. 8401 4209822 YP_687952.1 CDS yajD NC_008258.1 394202 394549 D hypothetical protein 394202..394549 Shigella flexneri 5 str. 8401 4209823 YP_687953.1 CDS tsx NC_008258.1 394726 395610 R nucleoside channel; receptor of phage T6 and colicin K; Code: M; COG: COG3248; outer membrane protein Tsx complement(394726..395610) Shigella flexneri 5 str. 8401 4209824 YP_687954.1 CDS yajI NC_008258.1 395908 396507 R hypothetical protein complement(395908..396507) Shigella flexneri 5 str. 8401 4209786 YP_687955.1 CDS nrdR NC_008258.1 396598 397047 D Code: K; COG: COG1327; transcriptional regulator NrdR 396598..397047 Shigella flexneri 5 str. 8401 4209787 YP_687956.1 CDS ribD NC_008258.1 397069 398154 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 397069..398154 Shigella flexneri 5 str. 8401 4209788 YP_687957.1 CDS ribH NC_008258.1 398189 398713 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 398189..398713 Shigella flexneri 5 str. 8401 4209789 YP_687958.1 CDS nusB NC_008258.1 398733 399152 D Regulates rRNA biosynthesis by transcriptional antitermination; transcription antitermination protein NusB 398733..399152 Shigella flexneri 5 str. 8401 4209790 YP_687959.1 CDS thiL NC_008258.1 399230 400207 D catalyzes the formation of thiamine diphosphate from thiamine phosphate ant ATP; thiamine monophosphate kinase 399230..400207 Shigella flexneri 5 str. 8401 4209791 YP_687960.1 CDS pgpA NC_008258.1 400194 400703 D hydrolyzes phosphatidylglycerophosphate to produce phosphatidylglycerol and phosphate; phosphatidylglycerophosphatase A 400194..400703 Shigella flexneri 5 str. 8401 4209792 YP_687961.1 CDS yajO NC_008258.1 400757 401731 R Code: C; COG: COG0667; NAD(P)H-dependent xylose reductase complement(400757..401731) Shigella flexneri 5 str. 8401 4209793 YP_687962.2 CDS dxs NC_008258.1 401786 403648 R 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(401786..403648) Shigella flexneri 5 str. 8401 4209794 YP_687963.1 CDS ispA NC_008258.1 403673 404572 R Code: H; COG: COG0142; geranyltranstransferase complement(403673..404572) Shigella flexneri 5 str. 8401 4209795 YP_687964.1 CDS xseB NC_008258.1 404572 404814 R catalyzes the bidirectional exonucleolytic cleavage of DNA; exodeoxyribonuclease VII small subunit complement(404572..404814) Shigella flexneri 5 str. 8401 4209796 YP_687965.1 CDS yajK NC_008258.1 405020 406468 D Required for the synthesis of the thiazole moiety; thiamine biosynthesis protein ThiI 405020..406468 Shigella flexneri 5 str. 8401 4209797 YP_687966.1 CDS thiJ NC_008258.1 406522 407112 R Code: R; COG: COG0693; DJ-1 family protein complement(406522..407112) Shigella flexneri 5 str. 8401 4209798 YP_687967.1 CDS apbA NC_008258.1 407075 407986 R ketopantoate reductase; catalyzes the NADPH reduction of ketopantoate to pantoate; functions in pantothenate (vitamin B5) biosynthesis; 2-dehydropantoate 2-reductase complement(407075..407986) Shigella flexneri 5 str. 8401 4209799 YP_687968.1 CDS yajQ NC_008258.1 408154 408645 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 408154..408645 Shigella flexneri 5 str. 8401 4209800 YP_687969.1 CDS SFV_0392 NC_008258.1 408705 410435 R hypothetical protein complement(408705..410435) Shigella flexneri 5 str. 8401 4209801 YP_687970.1 CDS SFV_0393 NC_008258.1 410488 412641 R Code: S; COG: COG2849; hypothetical protein complement(410488..412641) Shigella flexneri 5 str. 8401 4209802 YP_687971.1 CDS yajR NC_008258.1 412823 414193 R Code: GEPR; COG: COG0477; transport protein complement(412823..414193) Shigella flexneri 5 str. 8401 4209803 YP_687972.1 CDS SFV_0395 NC_008258.1 414587 415861 D Code: R; COG: COG0790; hypothetical protein 414587..415861 Shigella flexneri 5 str. 8401 4209804 YP_687973.1 CDS SFV_0396 NC_008258.1 416098 417033 D hypothetical protein 416098..417033 Shigella flexneri 5 str. 8401 4209805 YP_687974.1 CDS SFV_0397 NC_008258.1 417089 417487 R Code: KR; COG: COG0454; hypothetical protein complement(417089..417487) Shigella flexneri 5 str. 8401 4209825 YP_687975.1 CDS SFV_0398 NC_008258.1 417622 417981 R Code: S; COG: COG4453; hypothetical protein complement(417622..417981) Shigella flexneri 5 str. 8401 4209826 YP_687976.1 CDS cyoD NC_008258.1 419020 419349 R Code: C; COG: COG3125; cytochrome o ubiquinol oxidase subunit IV complement(419020..419349) Shigella flexneri 5 str. 8401 4209828 YP_687977.1 CDS cyoC NC_008258.1 419349 419963 R Code: C; COG: COG1845; cytochrome o ubiquinol oxidase subunit III complement(419349..419963) Shigella flexneri 5 str. 8401 4209829 YP_687978.1 CDS SFV_0404 NC_008258.1 422496 423302 R ISSfl4 ORF3 complement(422496..423302) Shigella flexneri 5 str. 8401 4209832 YP_687979.1 CDS SFV_0405 NC_008258.1 423278 423412 R ISSfl4 ORF3 complement(423278..423412) Shigella flexneri 5 str. 8401 4209833 YP_687980.1 CDS SFV_0406 NC_008258.1 423432 423779 R Code: L; COG: COG3436; ISSfl4 ORF2 complement(423432..423779) Shigella flexneri 5 str. 8401 4209834 YP_687981.1 CDS SFV_0407 NC_008258.1 423776 424450 R ISSfl4 ORF1 complement(423776..424450) Shigella flexneri 5 str. 8401 4209835 YP_687982.1 CDS ampG NC_008258.1 424820 426295 R in Escherichia coli this protein is a permease involved in peptidoglycan recycling; member of major facilitator superfamily; MFS; inner membrane protein; muropeptide transporter complement(424820..426295) Shigella flexneri 5 str. 8401 4209836 YP_687983.1 CDS yajG NC_008258.1 426339 427019 R Code: M; COG: COG3056; hypothetical protein complement(426339..427019) Shigella flexneri 5 str. 8401 4209837 YP_687984.1 CDS tig NC_008258.1 427883 429181 D Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer; trigger factor 427883..429181 Shigella flexneri 5 str. 8401 4209838 YP_687985.1 CDS clpP NC_008258.1 429428 430051 D hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates; ATP-dependent Clp protease proteolytic subunit 429428..430051 Shigella flexneri 5 str. 8401 4209839 YP_687986.1 CDS clpX NC_008258.1 430177 431451 D binds and unfolds substrates as part of the ClpXP protease; ATP-dependent protease ATP-binding subunit ClpX 430177..431451 Shigella flexneri 5 str. 8401 4209840 YP_687987.1 CDS lon NC_008258.1 431639 433993 D heat shock K-protein; Code: O; COG: COG0466; DNA-binding ATP-dependent protease La 431639..433993 Shigella flexneri 5 str. 8401 4209841 YP_687988.1 CDS hupB NC_008258.1 434202 434474 D histone-like DNA-binding protein; transcriptional regulator HU subunit beta 434202..434474 Shigella flexneri 5 str. 8401 4209842 YP_687989.1 CDS ybaU NC_008258.1 434666 436537 D Code: O; COG: COG0760; peptidyl-prolyl cis-trans isomerase 434666..436537 Shigella flexneri 5 str. 8401 4209843 YP_687990.1 CDS ybaV NC_008258.1 436688 437059 D Code: L; COG: COG1555; hypothetical protein 436688..437059 Shigella flexneri 5 str. 8401 4209844 YP_687991.1 CDS ybaW NC_008258.1 437153 437551 D Code: R; COG: COG0824; hypothetical protein 437153..437551 Shigella flexneri 5 str. 8401 4209845 YP_687992.1 CDS ybaX NC_008258.1 437603 438298 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(437603..438298) Shigella flexneri 5 str. 8401 4209846 YP_687993.1 CDS ybaE NC_008258.1 438363 439787 R Code: R; COG: COG4533; hypothetical protein complement(438363..439787) Shigella flexneri 5 str. 8401 4209847 YP_687994.1 CDS cof NC_008258.1 440155 440973 D Code: R; COG: COG0561; hypothetical protein 440155..440973 Shigella flexneri 5 str. 8401 4209848 YP_687995.1 CDS ybaO NC_008258.1 441019 441585 D Code: K; COG: COG1522; LRP-like transcriptional regulator 441019..441585 Shigella flexneri 5 str. 8401 4209849 YP_687996.1 CDS mdlA NC_008258.1 441615 443387 D Code: V; COG: COG1132; multidrug transporter membrane\ATP-binding proteins 441615..443387 Shigella flexneri 5 str. 8401 4209850 YP_687997.1 CDS mdlB NC_008258.1 443380 445161 D Code: V; COG: COG1132; multidrug transporter membrane\ATP-binding proteins 443380..445161 Shigella flexneri 5 str. 8401 4209851 YP_687998.1 CDS glnK NC_008258.1 445204 445680 D Code: E; COG: COG0347; nitrogen regulatory protein P-II 2 445204..445680 Shigella flexneri 5 str. 8401 4209852 YP_687999.1 CDS amtB NC_008258.1 445710 446996 D Code: P; COG: COG0004; ammonium transporter 445710..446996 Shigella flexneri 5 str. 8401 4209853 YP_688000.1 CDS tesB NC_008258.1 447045 447905 R Code: I; COG: COG1946; acyl-CoA thioesterase complement(447045..447905) Shigella flexneri 5 str. 8401 4209854 YP_688001.1 CDS ybaY NC_008258.1 448123 448695 D Code: S; COG: COG3126; hypothetical protein 448123..448695 Shigella flexneri 5 str. 8401 4209855 YP_688002.1 CDS SFV_0428 NC_008258.1 448788 450134 D Code: L; COG: COG3385; IS4 orf 448788..450134 Shigella flexneri 5 str. 8401 4209856 YP_688003.1 CDS ybaZ NC_008258.1 450164 450553 R Code: L; COG: COG3695; hypothetical protein complement(450164..450553) Shigella flexneri 5 str. 8401 4209857 YP_688004.1 CDS ybaA NC_008258.1 450854 451207 D Code: S; COG: COG5507; hypothetical protein 450854..451207 Shigella flexneri 5 str. 8401 4209858 YP_688005.1 CDS ylaB NC_008258.1 451249 452805 R Code: T; COG: COG4943; hypothetical protein complement(451249..452805) Shigella flexneri 5 str. 8401 4209859 YP_688006.1 CDS ylaC NC_008258.1 452963 453472 R hypothetical protein complement(452963..453472) Shigella flexneri 5 str. 8401 4209860 YP_688007.1 CDS ylaD NC_008258.1 453549 454100 R Code: R; COG: COG0110; maltose O-acetyltransferase complement(453549..454100) Shigella flexneri 5 str. 8401 4209861 YP_688008.1 CDS ybaJ NC_008258.1 454516 454890 R hypothetical protein complement(454516..454890) Shigella flexneri 5 str. 8401 4209862 YP_688009.1 CDS acrB NC_008258.1 455436 458585 R Code: V; COG: COG0841; acriflavin resistance protein complement(455436..458585) Shigella flexneri 5 str. 8401 4209863 YP_688010.1 CDS acrA NC_008258.1 458608 459837 R Code: M; COG: COG0845; acriflavin resistance protein A complement(458608..459837) Shigella flexneri 5 str. 8401 4209997 YP_688011.1 CDS acrR NC_008258.1 459943 460590 D regulates the acrAB operon which is involved in susceptibility to dephalothin and cephaloridine; DNA-binding transcriptional repressor AcrR 459943..460590 Shigella flexneri 5 str. 8401 4209998 YP_688012.1 CDS aefA NC_008258.1 460718 464080 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 460718..464080 Shigella flexneri 5 str. 8401 4209999 YP_688013.1 CDS ybaM NC_008258.1 464292 464453 R hypothetical protein complement(464292..464453) Shigella flexneri 5 str. 8401 4210000 YP_688014.1 CDS priC NC_008258.1 464467 464994 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(464467..464994) Shigella flexneri 5 str. 8401 4210001 YP_688015.1 CDS ybaN NC_008258.1 465064 465441 D Code: S; COG: COG2832; hypothetical protein 465064..465441 Shigella flexneri 5 str. 8401 4210002 YP_688016.1 CDS apt NC_008258.1 465594 466145 D catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis; adenine phosphoribosyltransferase 465594..466145 Shigella flexneri 5 str. 8401 4210003 YP_688017.1 CDS dnaX NC_008258.1 466274 468199 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 466274..468199 Shigella flexneri 5 str. 8401 4210004 YP_688018.1 CDS ybaB NC_008258.1 468252 468581 D Code: S; COG: COG0718; hypothetical protein 468252..468581 Shigella flexneri 5 str. 8401 4210005 YP_688019.1 CDS recR NC_008258.1 468581 469186 D involved in a recombinational process of DNA repair, independent of the recBC complex; recombination protein RecR 468581..469186 Shigella flexneri 5 str. 8401 4210006 YP_688020.1 CDS adk NC_008258.1 471350 471994 D essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP; adenylate kinase 471350..471994 Shigella flexneri 5 str. 8401 4210008 YP_688021.1 CDS hemH NC_008258.1 472126 473088 D 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 472126..473088 Shigella flexneri 5 str. 8401 4210009 YP_688022.1 CDS ybaC NC_008258.1 473085 474044 R Code: I; COG: COG0657; acetyl esterase complement(473085..474044) Shigella flexneri 5 str. 8401 4210010 YP_688023.1 CDS gsk NC_008258.1 474196 475500 D inosine-guanosine kinase 474196..475500 Shigella flexneri 5 str. 8401 4210011 YP_688024.1 CDS ybaL NC_008258.1 475633 477309 R YbaL; member of the CPA-2 family of antiporters; uncharacterized protein; cation:proton antiport protein complement(475633..477309) Shigella flexneri 5 str. 8401 4210012 YP_688025.1 CDS fsr NC_008258.1 477547 478767 R Code: GEPR; COG: COG0477; fosmidomycin resistance protein complement(477547..478767) Shigella flexneri 5 str. 8401 4210013 YP_688026.1 CDS ybaK NC_008258.1 480673 481152 R Code: S; COG: COG2606; hypothetical protein complement(480673..481152) Shigella flexneri 5 str. 8401 4210015 YP_688027.1 CDS ybaP NC_008258.1 481356 482150 R Code: S; COG: COG3735; ligase complement(481356..482150) Shigella flexneri 5 str. 8401 4210016 YP_688028.1 CDS ybaQ NC_008258.1 482234 482629 D Code: R; COG: COG3093; hypothetical protein 482234..482629 Shigella flexneri 5 str. 8401 4210017 YP_688029.1 CDS copA NC_008258.1 482844 485348 R Code: P; COG: COG2217; copper exporting ATPase complement(482844..485348) Shigella flexneri 5 str. 8401 4210018 YP_688030.1 CDS ybaS NC_008258.1 485610 486542 D catalyzes the formation of glutamate from glutamine; glutaminase 485610..486542 Shigella flexneri 5 str. 8401 4210019 YP_688031.1 CDS ybaT NC_008258.1 486545 487837 D Code: E; COG: COG0531; amino acid/amine transport protein 486545..487837 Shigella flexneri 5 str. 8401 4210020 YP_688032.1 CDS ybbI NC_008258.1 487962 488372 D activator of copper-responsive regulon genes; DNA-binding transcriptional regulator CueR 487962..488372 Shigella flexneri 5 str. 8401 4210021 YP_688033.1 CDS ybbJ NC_008258.1 488369 488815 R Code: OU; COG: COG1585; hypothetical protein complement(488369..488815) Shigella flexneri 5 str. 8401 4210022 YP_688034.1 CDS ybbK NC_008258.1 488824 489741 R Code: O; COG: COG0330; protease complement(488824..489741) Shigella flexneri 5 str. 8401 4210023 YP_688035.1 CDS ybbL NC_008258.1 489887 490564 D Code: R; COG: COG4619; ABC transporter ATP-binding protein YbbL 489887..490564 Shigella flexneri 5 str. 8401 4210024 YP_688036.1 CDS ybbM NC_008258.1 490551 491330 D Code: R; COG: COG0390; metal resistance protein 490551..491330 Shigella flexneri 5 str. 8401 4210025 YP_688037.1 CDS ybbN NC_008258.1 491393 492283 R Code: O; COG: COG3118; thioredoxin-like protein complement(491393..492283) Shigella flexneri 5 str. 8401 4210026 YP_688038.1 CDS ybbO NC_008258.1 492308 493078 R Code: IQR; COG: COG1028; short chain dehydrogenase complement(492308..493078) Shigella flexneri 5 str. 8401 4210027 YP_688039.1 CDS ybbA NC_008258.1 493700 494302 D Code: Q; COG: COG4181; ABC transporter ATP-binding protein 493700..494302 Shigella flexneri 5 str. 8401 4210028 YP_688040.1 CDS ybbP NC_008258.1 494299 496713 D Code: Q; COG: COG3127; oxidoreductase 494299..496713 Shigella flexneri 5 str. 8401 4210030 YP_688041.1 CDS ybbB NC_008258.1 497425 498519 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(497425..498519) Shigella flexneri 5 str. 8401 4210031 YP_688042.1 CDS ybbS NC_008258.1 498588 499514 R activator of the allDC-ylbA operon involved in allantoin utilization; DNA-binding transcriptional activator AllS complement(498588..499514) Shigella flexneri 5 str. 8401 4210032 YP_688043.1 CDS ybbT NC_008258.1 499744 500226 D catalyzes the formation of glyoxylate from (S)-ureidoglycolate; ureidoglycolate hydrolase 499744..500226 Shigella flexneri 5 str. 8401 4210033 YP_688044.1 CDS ybbU NC_008258.1 500304 501119 D regulates operons involved in the utilization of allantoin; DNA-binding transcriptional repressor AllR 500304..501119 Shigella flexneri 5 str. 8401 4210034 YP_688045.1 CDS gcl NC_008258.1 501155 502984 D catalyzes the formation of 2-hydroxy-3-oxopropanoate (tartronate semialdehyde) from two molecules of glyoxylate; glyoxylate carboligase 501155..502984 Shigella flexneri 5 str. 8401 4210035 YP_688046.1 CDS insB NC_008258.1 503289 503792 R Code: L; COG: COG1662; IS1 ORF2 complement(503289..503792) Shigella flexneri 5 str. 8401 4210056 YP_688047.1 CDS ylbA NC_008258.1 504015 504686 R Code: R; COG: COG3257; hypothetical protein complement(504015..504686) Shigella flexneri 5 str. 8401 4210057 YP_688048.1 CDS ylbB NC_008258.1 504697 505986 R allantoate amidohydrolase and N-carbamoyl-L-amino acid amidohydrolase are very similar; the allantoate amidohydrolase from Escherichia coli forms a dimer and binds zinc ions for catalytic activity and catalyzes the conversion of allantoate to (S)-ureidoglycolate and ammonia; carbamoyl amidohydrolase from Bacillus sp. converts N-carbamoyl amino acids to amino acids, ammonia, and carbon dioxide; allantoate amidohydrolase complement(504697..505986) Shigella flexneri 5 str. 8401 4210058 YP_688049.1 CDS ylbF NC_008258.1 505992 506579 D carboxylase 505992..506579 Shigella flexneri 5 str. 8401 4210059 YP_688050.1 CDS arcC NC_008258.1 506576 507469 D Code: E; COG: COG0549; carbamate kinase 506576..507469 Shigella flexneri 5 str. 8401 4210060 YP_688051.1 CDS purK NC_008258.1 507606 508673 R With PurE catalyzes the conversion of aminoimidazole ribonucleotide to carboxyaminoimidazole ribonucleotide in the de novo purine nucleotide biosynthetic pathway; phosphoribosylaminoimidazole carboxylase ATPase subunit complement(507606..508673) Shigella flexneri 5 str. 8401 4210061 YP_688052.1 CDS purE NC_008258.1 508670 509179 R Code: F; COG: COG0041; phosphoribosylaminoimidazole carboxylase catalytic subunit complement(508670..509179) Shigella flexneri 5 str. 8401 4210062 YP_688053.1 CDS ybbF NC_008258.1 509297 510019 R catalyzes the formation of 2,3=diacylglucosamine 1-phosphate from UDP-2,3=diacylglucosamine; UDP-2,3-diacylglucosamine hydrolase complement(509297..510019) Shigella flexneri 5 str. 8401 4210063 YP_688054.1 CDS ppiB NC_008258.1 510022 510516 R Code: O; COG: COG0652; peptidyl-prolyl cis-trans isomerase B complement(510022..510516) Shigella flexneri 5 str. 8401 4210064 YP_688055.2 CDS cysS NC_008258.1 510690 512075 D 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 510690..512075 Shigella flexneri 5 str. 8401 4210065 YP_688056.1 CDS ybcI NC_008258.1 512111 512620 R Code: R; COG: COG1988; hypothetical protein complement(512111..512620) Shigella flexneri 5 str. 8401 4210066 YP_688057.1 CDS ybcJ NC_008258.1 512728 512970 R Code: S; COG: COG2501; hypothetical protein complement(512728..512970) Shigella flexneri 5 str. 8401 4210067 YP_688058.1 CDS folD NC_008258.1 512942 513766 R 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 complement(512942..513766) Shigella flexneri 5 str. 8401 4210068 YP_688059.1 CDS sfmA NC_008258.1 514289 514813 D Code: NU; COG: COG3539; fimbrial-like protein 514289..514813 Shigella flexneri 5 str. 8401 4210069 YP_688060.1 CDS insB NC_008258.1 516186 516689 R Code: L; COG: COG1662; IS1 ORF2 complement(516186..516689) Shigella flexneri 5 str. 8401 4210072 YP_688061.1 CDS SFV_0492 NC_008258.1 516764 516973 D IS1 encoded protein 516764..516973 Shigella flexneri 5 str. 8401 4210073 YP_688062.1 CDS sfmF NC_008258.1 519076 519591 D Code: NU; COG: COG3539; fimbrial protein 519076..519591 Shigella flexneri 5 str. 8401 4210075 YP_688063.2 CDS SFV_0495 NC_008258.1 519641 520546 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(519641..520546) Shigella flexneri 5 str. 8401 4210076 YP_688064.1 CDS SFV_0496 NC_008258.1 520504 520869 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(520504..520869) Shigella flexneri 5 str. 8401 4210077 YP_688065.1 CDS fimZ NC_008258.1 520945 521625 R activates the production of the major fimbrae protein FimA; transcriptional regulator FimZ complement(520945..521625) Shigella flexneri 5 str. 8401 4210078 YP_688066.1 CDS envY NC_008258.1 521927 522688 R thermoregulation of porin biosynthesis; Code: K; COG: COG2207; envelope protein complement(521927..522688) Shigella flexneri 5 str. 8401 4210080 YP_688067.1 CDS ybcH NC_008258.1 522871 523761 R hypothetical protein complement(522871..523761) Shigella flexneri 5 str. 8401 4210081 YP_688068.1 CDS nfrB NC_008258.1 526394 528556 R bacteriophage N4 adsorption protein B complement(526394..528556) Shigella flexneri 5 str. 8401 4210083 YP_688069.1 CDS ybcZ NC_008258.1 528781 530223 R Code: T; COG: COG0642; sensor kinase CusS complement(528781..530223) Shigella flexneri 5 str. 8401 4210084 YP_688070.1 CDS ylcA NC_008258.1 530213 530896 R response regulator in two-component regulatory system with CusS; regulates the copper efflux system; DNA-binding transcriptional activator CusR complement(530213..530896) Shigella flexneri 5 str. 8401 4210085 YP_688071.1 CDS ylcC NC_008258.1 532459 532791 D Code: S; COG: COG5569; periplasmic copper-binding protein 532459..532791 Shigella flexneri 5 str. 8401 4210087 YP_688072.1 CDS SFV_0508 NC_008258.1 534095 534742 R Code: L; COG: COG2801; IS629 ORF2 complement(534095..534742) Shigella flexneri 5 str. 8401 4210089 YP_688073.1 CDS SFV_0509 NC_008258.1 534978 535304 R Code: L; COG: COG2963; IS629 ORF1 complement(534978..535304) Shigella flexneri 5 str. 8401 4210090 YP_688074.1 CDS SFV_0510 NC_008258.1 535381 536601 D bacteriophage protein 535381..536601 Shigella flexneri 5 str. 8401 4210091 YP_688075.1 CDS SFV_0511 NC_008258.1 536642 537355 R Code: L; COG: COG2801; IS600 ORF2 complement(536642..537355) Shigella flexneri 5 str. 8401 4210092 YP_688076.1 CDS SFV_0512 NC_008258.1 537496 537798 R Code: L; COG: COG2963; IS600 ORF1 complement(537496..537798) Shigella flexneri 5 str. 8401 4210093 YP_688077.2 CDS SFV_0513 NC_008258.1 539511 540416 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(539511..540416) Shigella flexneri 5 str. 8401 4210094 YP_688078.1 CDS SFV_0514 NC_008258.1 540374 540739 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(540374..540739) Shigella flexneri 5 str. 8401 4210095 YP_688079.1 CDS ybdE NC_008258.1 541557 544736 D Code: P; COG: COG3696; inner membrane component for iron transport 541557..544736 Shigella flexneri 5 str. 8401 4210096 YP_688080.1 CDS pheP NC_008258.1 544837 546213 D Code: E; COG: COG1113; phenylalanine transporter 544837..546213 Shigella flexneri 5 str. 8401 4210097 YP_688081.1 CDS ybdG NC_008258.1 546281 547528 R Code: M; COG: COG0668; transport protein complement(546281..547528) Shigella flexneri 5 str. 8401 4210098 YP_688082.1 CDS nfnB NC_008258.1 547636 548289 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(547636..548289) Shigella flexneri 5 str. 8401 4210099 YP_688083.1 CDS ybdF NC_008258.1 548383 548751 R Code: S; COG: COG2315; hypothetical protein complement(548383..548751) Shigella flexneri 5 str. 8401 4210100 YP_688084.1 CDS ybdJ NC_008258.1 548816 549064 R hypothetical protein complement(548816..549064) Shigella flexneri 5 str. 8401 4210101 YP_688085.1 CDS ybdK NC_008258.1 549130 550248 R ATP-dependent; carboxylate-amine ligase with weak glutamate--cysteine ligase activity; carboxylate-amine ligase complement(549130..550248) Shigella flexneri 5 str. 8401 4210102 YP_688086.1 CDS SFV_0522 NC_008258.1 550680 551162 D Code: L; COG: COG2963; IS150 ORF1(ORF A) 550680..551162 Shigella flexneri 5 str. 8401 4210103 YP_688087.1 CDS SFV_0523 NC_008258.1 551159 551872 R Code: L; COG: COG2801; IS600 ORF2 complement(551159..551872) Shigella flexneri 5 str. 8401 4210104 YP_688088.1 CDS SFV_0524 NC_008258.1 552142 552789 R Code: L; COG: COG2801; IS629 ORF2 complement(552142..552789) Shigella flexneri 5 str. 8401 4210105 YP_688089.1 CDS SFV_0525 NC_008258.1 553025 553351 R Code: L; COG: COG2963; IS629 ORF1 complement(553025..553351) Shigella flexneri 5 str. 8401 4210106 YP_688090.1 CDS SFV_0526 NC_008258.1 553403 553624 R Code: L; COG: COG2963; IS600 ORF1 complement(553403..553624) Shigella flexneri 5 str. 8401 4210107 YP_688091.1 CDS SFV_0527 NC_008258.1 553774 554625 D Code: L; COG: COG2801; IS150 ORF2 553774..554625 Shigella flexneri 5 str. 8401 4210108 YP_688092.1 CDS entD NC_008258.1 555499 556269 R Code: Q; COG: COG2977; phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex complement(555499..556269) Shigella flexneri 5 str. 8401 4210109 YP_688093.1 CDS fepA NC_008258.1 556294 558534 R 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(556294..558534) Shigella flexneri 5 str. 8401 4210110 YP_688094.1 CDS fes NC_008258.1 558777 559979 D Code: P; COG: COG2382; enterobactin/ferric enterobactin esterase 558777..559979 Shigella flexneri 5 str. 8401 4210111 YP_688095.1 CDS ybdZ NC_008258.1 559982 560200 D Code: S; COG: COG3251; cytoplasmic protein 559982..560200 Shigella flexneri 5 str. 8401 4210112 YP_688096.1 CDS entF NC_008258.1 560197 564090 D 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 560197..564090 Shigella flexneri 5 str. 8401 4209463 YP_688097.1 CDS SFV_0533 NC_008258.1 564102 564293 R IS1 encoded protein complement(564102..564293) Shigella flexneri 5 str. 8401 4209464 YP_688098.1 CDS insB NC_008258.1 564368 564871 D Code: L; COG: COG1662; IS1 ORF2 564368..564871 Shigella flexneri 5 str. 8401 4209465 YP_688099.1 CDS fepC NC_008258.1 566212 567027 R with FepBDE is involved in the transport of ferric enterobactin; iron-enterobactin transporter ATP-binding protein complement(566212..567027) Shigella flexneri 5 str. 8401 4209467 YP_688100.1 CDS fepG NC_008258.1 567024 568016 R with FepBCD is involved in the transport of ferric enterobactin; iron-enterobactin transporter permease complement(567024..568016) Shigella flexneri 5 str. 8401 4209468 YP_688101.1 CDS fepD NC_008258.1 568013 569017 R with FepBCG is involved in the transport of ferric enterobactin; iron-enterobactin transporter membrane protein complement(568013..569017) Shigella flexneri 5 str. 8401 4209469 YP_688102.1 CDS ybdA NC_008258.1 569128 570360 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 569128..570360 Shigella flexneri 5 str. 8401 4209470 YP_688103.1 CDS fepB NC_008258.1 570364 571320 R with FepCDG is involved in the transport of ferric enterobactin; iron-enterobactin ABC transporter substrate-binding protein complement(570364..571320) Shigella flexneri 5 str. 8401 4209471 YP_688104.1 CDS entE NC_008258.1 572797 574407 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 572797..574407 Shigella flexneri 5 str. 8401 4209473 YP_688105.1 CDS entB NC_008258.1 574421 575278 D Code: Q; COG: COG1535; 2,3-dihydro-2,3-dihydroxybenzoate synthetase 574421..575278 Shigella flexneri 5 str. 8401 4209474 YP_688106.1 CDS entA NC_008258.1 575278 576024 D 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 575278..576024 Shigella flexneri 5 str. 8401 4209475 YP_688107.1 CDS ybdB NC_008258.1 576027 576440 D Code: Q; COG: COG2050; hypothetical protein 576027..576440 Shigella flexneri 5 str. 8401 4209476 YP_688108.1 CDS cstA NC_008258.1 576621 578726 D Code: T; COG: COG1966; carbon starvation protein 576621..578726 Shigella flexneri 5 str. 8401 4209477 YP_688109.1 CDS ybdD NC_008258.1 578908 579105 D Code: S; COG: COG2879; hypothetical protein 578908..579105 Shigella flexneri 5 str. 8401 4209478 YP_688110.1 CDS ybdH NC_008258.1 579115 580203 R member of the iron-containing alcohol dehydrogenase; unknown function; hypothetical protein complement(579115..580203) Shigella flexneri 5 str. 8401 4209479 YP_688111.1 CDS ybdL NC_008258.1 580312 581472 D catalyzes the transfer of an amino moiety; aminotransferase 580312..581472 Shigella flexneri 5 str. 8401 4209480 YP_688112.1 CDS ybdM NC_008258.1 581473 581964 R Code: K; COG: COG1475; hypothetical protein complement(581473..581964) Shigella flexneri 5 str. 8401 4209481 YP_688113.1 CDS SFV_0551 NC_008258.1 581992 582831 R Code: L; COG: COG2801; IS911 ORF2 complement(581992..582831) Shigella flexneri 5 str. 8401 4209482 YP_688114.1 CDS SFV_0552 NC_008258.1 582858 583160 R Code: L; COG: COG2963; IS911 ORF1 complement(582858..583160) Shigella flexneri 5 str. 8401 4210636 YP_688115.1 CDS SFV_0553 NC_008258.1 583327 583821 R hypothetical protein complement(583327..583821) Shigella flexneri 5 str. 8401 4210637 YP_688116.1 CDS SFV_0554 NC_008258.1 583894 584304 R hypothetical protein complement(583894..584304) Shigella flexneri 5 str. 8401 4210638 YP_688117.1 CDS SFV_0555 NC_008258.1 584410 584688 D Code: L; COG: COG2963; ISEhe3 orfA 584410..584688 Shigella flexneri 5 str. 8401 4210639 YP_688118.1 CDS SFV_0556 NC_008258.1 584745 585557 D Code: L; COG: COG2801; ISEhe3 orfB 584745..585557 Shigella flexneri 5 str. 8401 4210640 YP_688119.1 CDS ybdO NC_008258.1 585926 586828 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(585926..586828) Shigella flexneri 5 str. 8401 4210641 YP_688120.1 CDS dsbG NC_008258.1 587038 587844 R Involved in disulfide bond formation; disulfide isomerase/thiol-disulfide oxidase complement(587038..587844) Shigella flexneri 5 str. 8401 4210642 YP_688121.1 CDS ahpC NC_008258.1 588156 588719 D detoxification of hydroperoxides; with AhpF catalyzes the conversion of alkyl hydroperoxides to their corresponding alcohols; AhpC reduced the hydroperoxide substrate; alkyl hydroperoxide reductase 588156..588719 Shigella flexneri 5 str. 8401 4210643 YP_688122.1 CDS ahpF NC_008258.1 588964 590529 D Code: O; COG: COG3634; alkyl hydroperoxide reductase 588964..590529 Shigella flexneri 5 str. 8401 4210644 YP_688123.1 CDS ybdQ NC_008258.1 590650 591078 R Code: T; COG: COG0589; hypothetical protein complement(590650..591078) Shigella flexneri 5 str. 8401 4210645 YP_688124.1 CDS ybdR NC_008258.1 591299 592537 D Code: ER; COG: COG1063; oxidoreductase 591299..592537 Shigella flexneri 5 str. 8401 4210646 YP_688125.1 CDS rnk NC_008258.1 592768 593178 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(592768..593178) Shigella flexneri 5 str. 8401 4210647 YP_688126.1 CDS rna NC_008258.1 593407 594231 R cleaves phosphodiester bond between any two nucleotides; Code: J; COG: COG3719; ribonuclease I complement(593407..594231) Shigella flexneri 5 str. 8401 4210648 YP_688127.1 CDS ybdS NC_008258.1 594327 595790 R Code: P; COG: COG0471; hypothetical protein complement(594327..595790) Shigella flexneri 5 str. 8401 4210649 YP_688128.1 CDS citG NC_008258.1 595841 596719 R catalyzes the formation of 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA from ATP and 3-dephospho-CoA; triphosphoribosyl-dephospho-CoA synthase complement(595841..596719) Shigella flexneri 5 str. 8401 4210650 YP_688129.1 CDS citX NC_008258.1 596694 597245 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'-dephospho-CoA:apo- citrate lyase complement(596694..597245) Shigella flexneri 5 str. 8401 4210651 YP_688130.1 CDS citF NC_008258.1 597249 598823 R Code: C; COG: COG3051; citrate lyase subunit alpha complement(597249..598823) Shigella flexneri 5 str. 8401 4210652 YP_688131.1 CDS citE NC_008258.1 598792 599700 R Code: G; COG: COG2301; citrate lyase subunit beta complement(598792..599700) Shigella flexneri 5 str. 8401 4210653 YP_688132.1 CDS citD NC_008258.1 599697 599993 R acyl carrier protein; with CitE and CitF catalyzes the formation of oxaloacetate from citrate; citrate lyase subunit gamma complement(599697..599993) Shigella flexneri 5 str. 8401 4210654 YP_688133.1 CDS insB NC_008258.1 601264 601767 R Code: L; COG: COG1662; IS1 ORF2 complement(601264..601767) Shigella flexneri 5 str. 8401 4210841 YP_688134.1 CDS SFV_0573 NC_008258.1 601881 602594 D Code: L; COG: COG0582; integrase 601881..602594 Shigella flexneri 5 str. 8401 4210842 YP_688135.1 CDS ybhA NC_008258.1 602728 603648 D 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 602728..603648 Shigella flexneri 5 str. 8401 4210843 YP_688136.1 CDS modC NC_008258.1 603649 604707 R Part of the ABC transporter complex modABC involved in molybdenum import; molybdate transporter ATP-binding protein complement(603649..604707) Shigella flexneri 5 str. 8401 4210844 YP_688137.1 CDS modB NC_008258.1 604710 605399 R part of ModCBA molybdate transporter; member of ABC superfamily; inner membrane component; regulated by repressor protein ModE; molybdate ABC transporter permease complement(604710..605399) Shigella flexneri 5 str. 8401 4210845 YP_688138.1 CDS modA NC_008258.1 605399 606172 R with ModCB is involved in the high-affinity transport of molybdate; molybdate ABC transporter substrate-binding protein complement(605399..606172) Shigella flexneri 5 str. 8401 4210846 YP_688139.1 CDS SFV_0578 NC_008258.1 606339 606488 R hypothetical protein complement(606339..606488) Shigella flexneri 5 str. 8401 4210847 YP_688140.1 CDS modE NC_008258.1 606617 607405 D represses the modABCD operon and activates the moaABCD and napFDAGHBC operons; DNA-binding transcriptional regulator ModE 606617..607405 Shigella flexneri 5 str. 8401 4210848 YP_688141.1 CDS modF NC_008258.1 607473 608945 D contains 2 ATP-binding cassettes; involved in the transport of molybdenum; molybdenum transport ATP-binding protein ModF 607473..608945 Shigella flexneri 5 str. 8401 4210849 YP_688142.1 CDS galE NC_008258.1 609206 610222 D Code: M; COG: COG1087; UDP-galactose-4-epimerase 609206..610222 Shigella flexneri 5 str. 8401 4210850 YP_688143.1 CDS galT NC_008258.1 610232 611278 D catalyzes the interconversion of UDP-galactose and galactose-1-P with UDP-galactose and glucose-1-P; galactose-1-phosphate uridylyltransferase 610232..611278 Shigella flexneri 5 str. 8401 4210851 YP_688144.1 CDS galK NC_008258.1 611282 612430 D catalyzes the formation of alpha-D-galactose 1-phosphate from D-galactose in galactose metabolism; galactokinase 611282..612430 Shigella flexneri 5 str. 8401 4210852 YP_688145.1 CDS galM NC_008258.1 612424 613464 D 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 612424..613464 Shigella flexneri 5 str. 8401 4210853 YP_688146.1 CDS gpmA NC_008258.1 613667 614419 D 2,3-bisphosphoglycerate-dependent; catalyzes the interconversion of 2-phosphoglycerate to 3-phosphoglycerate; phosphoglyceromutase 613667..614419 Shigella flexneri 5 str. 8401 4210854 YP_688147.1 CDS aroG NC_008258.1 614586 615638 R 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 complement(614586..615638) Shigella flexneri 5 str. 8401 4210855 YP_688148.1 CDS SFV_0587 NC_008258.1 615954 616334 D homeobox protein 615954..616334 Shigella flexneri 5 str. 8401 4210856 YP_688149.1 CDS ybgR NC_008258.1 616448 617389 D involved in zinc efflux across the cytoplasmic membrane; zinc transporter ZitB 616448..617389 Shigella flexneri 5 str. 8401 4210857 YP_688150.1 CDS pnuC NC_008258.1 617386 618105 R Code: H; COG: COG3201; PnuC protein complement(617386..618105) Shigella flexneri 5 str. 8401 4210858 YP_688151.1 CDS nadA NC_008258.1 618143 619186 R 3 different subfamilies; catalyzes the formation of quinolinate from iminoaspartate and dihydroxyacetone phosphate; quinolinate synthetase complement(618143..619186) Shigella flexneri 5 str. 8401 4210859 YP_688152.1 CDS ybgF NC_008258.1 619965 620756 R periplasmic protein that interacts with TolA; the tol-pal system is probably involved in maintaining cell envelope integrity; tol-pal system protein YbgF complement(619965..620756) Shigella flexneri 5 str. 8401 4210827 YP_688153.1 CDS pal NC_008258.1 620766 621287 R Code: M; COG: COG2885; peptidoglycan-associated outer membrane lipoprotein complement(620766..621287) Shigella flexneri 5 str. 8401 4210828 YP_688154.1 CDS tolB NC_008258.1 621322 622614 R 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 complement(621322..622614) Shigella flexneri 5 str. 8401 4210829 YP_688155.1 CDS tolA NC_008258.1 622747 623988 R 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 complement(622747..623988) Shigella flexneri 5 str. 8401 4210830 YP_688156.1 CDS tolR NC_008258.1 624053 624481 R membrane spanning protein in TolA-TolQ-TolR complex; involved in the tonB-independent uptake of group A colicins; colicin uptake protein TolR complement(624053..624481) Shigella flexneri 5 str. 8401 4210831 YP_688157.1 CDS tolQ NC_008258.1 624485 625168 R membrane spanning protein in TolA-TolQ-TolR complex; involved in the tonB-independent uptake of group A colicins; colicin uptake protein TolQ complement(624485..625168) Shigella flexneri 5 str. 8401 4210832 YP_688158.1 CDS ybgC NC_008258.1 625174 625578 R 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 complement(625174..625578) Shigella flexneri 5 str. 8401 4210833 YP_688159.1 CDS ybgE NC_008258.1 625728 626021 R Code: S; COG: COG3790; hypothetical protein complement(625728..626021) Shigella flexneri 5 str. 8401 4210834 YP_688160.1 CDS cydB NC_008258.1 626149 627288 R Code: C; COG: COG1294; cytochrome d terminal oxidase polypeptide subunit II complement(626149..627288) Shigella flexneri 5 str. 8401 4210835 YP_688161.1 CDS cydA NC_008258.1 627304 628872 R Code: C; COG: COG1271; cytochrome d terminal oxidase, polypeptide subunit I complement(627304..628872) Shigella flexneri 5 str. 8401 4210836 YP_688162.1 CDS ybgG NC_008258.1 629722 632355 R Code: G; COG: COG0383; alpha-mannosidase complement(629722..632355) Shigella flexneri 5 str. 8401 4210837 YP_688163.1 CDS farR NC_008258.1 634459 635181 D regulates the succiny-lCoA synthetase operon; DNA-binding transcriptional repressor MngR 634459..635181 Shigella flexneri 5 str. 8401 4210839 YP_688164.1 CDS sucD NC_008258.1 635284 636153 R Catalyzes the only substrate-level phosphorylation in the TCA cycle; succinyl-CoA synthetase subunit alpha complement(635284..636153) Shigella flexneri 5 str. 8401 4207361 YP_688165.1 CDS sucC NC_008258.1 636153 637319 R catalyzes the interconversion of succinyl-CoA and succinate; succinyl-CoA synthetase subunit beta complement(636153..637319) Shigella flexneri 5 str. 8401 4207362 YP_688166.1 CDS sucB NC_008258.1 637413 638630 R 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 complement(637413..638630) Shigella flexneri 5 str. 8401 4207363 YP_688167.1 CDS sucA NC_008258.1 638645 641446 R 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 complement(638645..641446) Shigella flexneri 5 str. 8401 4207364 YP_688168.1 CDS sdhB NC_008258.1 641747 642463 R 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 complement(641747..642463) Shigella flexneri 5 str. 8401 4207365 YP_688169.1 CDS sdhA NC_008258.1 642479 644245 R 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 complement(642479..644245) Shigella flexneri 5 str. 8401 4207366 YP_688170.1 CDS sdhD NC_008258.1 644245 644592 R Code: C; COG: COG2142; succinate dehydrogenase cytochrome b556 small membrane subunit complement(644245..644592) Shigella flexneri 5 str. 8401 4207367 YP_688171.1 CDS sdhC NC_008258.1 644586 644975 R Code: C; COG: COG2009; succinate dehydrogenase cytochrome b556 large membrane subunit complement(644586..644975) Shigella flexneri 5 str. 8401 4207368 YP_688172.1 CDS gltA NC_008258.1 645684 646967 D 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 645684..646967 Shigella flexneri 5 str. 8401 4207369 YP_688173.1 CDS ybgD NC_008258.1 647357 647923 D Code: NU; COG: COG3539; fimbrial-like protein 647357..647923 Shigella flexneri 5 str. 8401 4207370 YP_688174.1 CDS ybgQ NC_008258.1 647932 650433 D Code: NU; COG: COG3188; outer membrane protein 647932..650433 Shigella flexneri 5 str. 8401 4207371 YP_688175.1 CDS ybgP NC_008258.1 650448 651179 D Code: NU; COG: COG3121; chaperone 650448..651179 Shigella flexneri 5 str. 8401 4207372 YP_688176.1 CDS ybgO NC_008258.1 651512 652252 D hypothetical protein 651512..652252 Shigella flexneri 5 str. 8401 4207373 YP_688177.1 CDS nei NC_008258.1 653447 654238 R 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 complement(653447..654238) Shigella flexneri 5 str. 8401 4207375 YP_688178.1 CDS ybgL NC_008258.1 654274 655008 R Code: R; COG: COG1540; LamB/YcsF family protein complement(654274..655008) Shigella flexneri 5 str. 8401 4207376 YP_688179.1 CDS ybgJ NC_008258.1 655924 656580 R Code: E; COG: COG2049; carboxylase complement(655924..656580) Shigella flexneri 5 str. 8401 4207378 YP_688180.1 CDS ybgI NC_008258.1 656603 657346 R Code: S; COG: COG0327; hydrolase-oxidase complement(656603..657346) Shigella flexneri 5 str. 8401 4207379 YP_688181.1 CDS ybgH NC_008258.1 657617 659098 D Code: E; COG: COG3104; transport protein 657617..659098 Shigella flexneri 5 str. 8401 4207380 YP_688182.1 CDS phrB NC_008258.1 659248 660666 R UV-induced DNA repair; converts cyclobutane-type pyrimidine dimers created during exposure to UV ratiation to monomers; light dependent; deoxyribodipyrimidine photolyase complement(659248..660666) Shigella flexneri 5 str. 8401 4210655 YP_688183.1 CDS ybgA NC_008258.1 660663 661172 R Code: S; COG: COG3272; hypothetical protein complement(660663..661172) Shigella flexneri 5 str. 8401 4210656 YP_688184.1 CDS SFV_0629 NC_008258.1 661301 661588 D hypothetical protein 661301..661588 Shigella flexneri 5 str. 8401 4210657 YP_688185.1 CDS SFV_0630 NC_008258.1 662026 666690 R Code: M; COG: COG3209; Rhs family protein complement(662026..666690) Shigella flexneri 5 str. 8401 4210658 YP_688186.1 CDS SFV_0631 NC_008258.1 666709 666909 R hypothetical protein complement(666709..666909) Shigella flexneri 5 str. 8401 4210659 YP_688187.1 CDS insB NC_008258.1 667306 667809 R Code: L; COG: COG1662; IS1 ORF2 complement(667306..667809) Shigella flexneri 5 str. 8401 4210660 YP_688188.1 CDS SFV_0633 NC_008258.1 667884 668099 D IS1 encoded protein 667884..668099 Shigella flexneri 5 str. 8401 4210661 YP_688189.1 CDS ybfA NC_008258.1 668497 668703 R hypothetical protein complement(668497..668703) Shigella flexneri 5 str. 8401 4210662 YP_688190.1 CDS kdpA NC_008258.1 669105 670754 D catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions; potassium-transporting ATPase subunit A 669105..670754 Shigella flexneri 5 str. 8401 4210663 YP_688191.1 CDS kdpC NC_008258.1 672833 673405 D 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. The C subunit may be involved in assembly of the KDP complex; potassium-transporting ATPase subunit C 672833..673405 Shigella flexneri 5 str. 8401 4210665 YP_688192.1 CDS kdpE NC_008258.1 676153 676755 D response regulator in two-component regulatory system with KdpD; regulates the kdp operon involved in potassium transport; DNA-binding transcriptional activator KdpE 676153..676755 Shigella flexneri 5 str. 8401 4210667 YP_688193.1 CDS SFV_0640 NC_008258.1 676777 676911 R hypothetical protein complement(676777..676911) Shigella flexneri 5 str. 8401 4210668 YP_688194.1 CDS potE NC_008258.1 679639 680958 D catalyzes the uptake of putrescine via a proton symport mechanism, as well as the efflux of putrescine by a putrescine/ornithine antiport system; putrescine transporter 679639..680958 Shigella flexneri 5 str. 8401 4210670 YP_688195.1 CDS pgm NC_008258.1 681014 682654 R catalyzes the interconversion of alpha-D-glucose 1-phosphate to alpha-D-glucose 6-phosphate; phosphoglucomutase complement(681014..682654) Shigella flexneri 5 str. 8401 4210671 YP_688196.1 CDS seqA NC_008258.1 682680 683258 R negative modulator of the initiation of chromosome replication; replication initiation regulator SeqA complement(682680..683258) Shigella flexneri 5 str. 8401 4210672 YP_688197.1 CDS ybfF NC_008258.1 683411 684175 D Code: R; COG: COG0596; hypothetical protein 683411..684175 Shigella flexneri 5 str. 8401 4210673 YP_688198.1 CDS ybfE NC_008258.1 684246 684608 D LexA regulated protein 684246..684608 Shigella flexneri 5 str. 8401 4210694 YP_688199.1 CDS fldA NC_008258.1 684631 685278 D An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic group; flavodoxin FldA 684631..685278 Shigella flexneri 5 str. 8401 4210695 YP_688200.1 CDS fur NC_008258.1 685568 686014 D negatively regulates a number of operons that encode enzymes involved in iron transport; activated by manganese; forms a homodimer; ferric uptake regulator 685568..686014 Shigella flexneri 5 str. 8401 4210696 YP_688201.1 CDS ybfN NC_008258.1 686098 686442 R hypothetical protein complement(686098..686442) Shigella flexneri 5 str. 8401 4210697 YP_688202.1 CDS ybfM NC_008258.1 686461 687867 R hypothetical protein complement(686461..687867) Shigella flexneri 5 str. 8401 4210698 YP_688203.1 CDS glnS NC_008258.1 688446 690110 R 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 complement(688446..690110) Shigella flexneri 5 str. 8401 4210699 YP_688204.1 CDS nagE NC_008258.1 690313 692259 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 N-acetyl glucosamine specific transporter subunits IIABC complement(690313..692259) Shigella flexneri 5 str. 8401 4210700 YP_688205.1 CDS nagB NC_008258.1 692592 693392 D catalyzes the reversible formation of fructose 6-phosphate from glucosamine 6-phosphate; glucosamine-6-phosphate deaminase 692592..693392 Shigella flexneri 5 str. 8401 4210701 YP_688206.1 CDS nagA NC_008258.1 693452 694600 D catalyzes the formation of glucosamine 6-phosphate from N-acetylglucosamine 6-phosphate; N-acetylglucosamine-6-phosphate deacetylase 693452..694600 Shigella flexneri 5 str. 8401 4210702 YP_688207.1 CDS nagC NC_008258.1 694609 695829 D Code: KG; COG: COG1940; transcriptional repressor of nag (N-acetylglucosamine) operon 694609..695829 Shigella flexneri 5 str. 8401 4210703 YP_688208.1 CDS nagD NC_008258.1 695877 696629 D Code: G; COG: COG0647; UMP phosphatase 695877..696629 Shigella flexneri 5 str. 8401 4210704 YP_688209.1 CDS asnB NC_008258.1 697026 698690 D functions in asparagine biosynthesis; converts glutamine, aspartate, ATP, and water to glutamate, asparagine, pyrophosphate and AMP; asparagine synthetase B 697026..698690 Shigella flexneri 5 str. 8401 4210705 YP_688210.1 CDS ubiF NC_008258.1 699929 701104 R 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 complement(699929..701104) Shigella flexneri 5 str. 8401 4209715 YP_688211.1 CDS yleA NC_008258.1 701250 702674 D 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 701250..702674 Shigella flexneri 5 str. 8401 4209716 YP_688212.1 CDS ybeZ NC_008258.1 702827 703867 D Code: T; COG: COG1702; ATP-binding protein in pho regulon 702827..703867 Shigella flexneri 5 str. 8401 4209717 YP_688213.1 CDS ybeY NC_008258.1 703864 704331 D Code: R; COG: COG0319; metalloprotease 703864..704331 Shigella flexneri 5 str. 8401 4209718 YP_688214.1 CDS ybeX NC_008258.1 704421 705299 D Code: P; COG: COG4535; transport protein 704421..705299 Shigella flexneri 5 str. 8401 4209719 YP_688215.1 CDS lnt NC_008258.1 705324 706862 D Transfers the fatty acyl group on membrane lipoproteins; apolipoprotein N-acyltransferase 705324..706862 Shigella flexneri 5 str. 8401 4209720 YP_688216.1 CDS ybeJ NC_008258.1 707259 708167 D Code: ET; COG: COG0834; glutamate and aspartate transporter subunit 707259..708167 Shigella flexneri 5 str. 8401 4209721 YP_688217.1 CDS gltJ NC_008258.1 708337 709077 D Code: E; COG: COG0765; glutamate/aspartate transport system permease 708337..709077 Shigella flexneri 5 str. 8401 4209722 YP_688218.1 CDS gltK NC_008258.1 709077 709751 D Code: E; COG: COG0765; glutamate/aspartate transport system permease 709077..709751 Shigella flexneri 5 str. 8401 4209723 YP_688219.1 CDS gltL NC_008258.1 709751 710476 D Code: E; COG: COG1126; ATP-binding protein of glutamate/aspartate transport system 709751..710476 Shigella flexneri 5 str. 8401 4209724 YP_688220.1 CDS rihA NC_008258.1 710594 711529 D Hydrolyzes with equal efficiency cytidine or uridine to ribose and cytosine or uracil, respectively; pyrimidine-specific; ribonucleoside hydrolase 1 710594..711529 Shigella flexneri 5 str. 8401 4209725 YP_688221.1 CDS ybeW NC_008258.1 711613 713283 D Code: O; COG: COG0443; molecular chaperone DnaK 711613..713283 Shigella flexneri 5 str. 8401 4209726 YP_688222.1 CDS ybeV NC_008258.1 713343 714794 R hypothetical protein complement(713343..714794) Shigella flexneri 5 str. 8401 4209920 YP_688223.1 CDS ybeU NC_008258.1 714791 715498 R tRNA ligase complement(714791..715498) Shigella flexneri 5 str. 8401 4209921 YP_688224.1 CDS ybeT NC_008258.1 715600 716154 D Code: R; COG: COG0790; hypothetical protein 715600..716154 Shigella flexneri 5 str. 8401 4209922 YP_688225.1 CDS ybeS NC_008258.1 716164 717591 R polynucleotide modification protein complement(716164..717591) Shigella flexneri 5 str. 8401 4209923 YP_688226.1 CDS ybeR NC_008258.1 717588 718295 R hypothetical protein complement(717588..718295) Shigella flexneri 5 str. 8401 4209924 YP_688227.1 CDS ybeQ NC_008258.1 718459 719436 D Code: R; COG: COG0790; hypothetical protein 718459..719436 Shigella flexneri 5 str. 8401 4209925 YP_688228.1 CDS ybeL NC_008258.1 719506 719988 R hypothetical protein complement(719506..719988) Shigella flexneri 5 str. 8401 4209926 YP_688229.1 CDS leuS NC_008258.1 720130 722805 D 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 720130..722805 Shigella flexneri 5 str. 8401 4209927 YP_688230.1 CDS rlpB NC_008258.1 722820 723401 D a minor lipoprotein; rare lipoprotein B; involved in the assembly of LPS in the outer membrane; LPS-assembly lipoprotein RlpB 722820..723401 Shigella flexneri 5 str. 8401 4209928 YP_688231.1 CDS holA NC_008258.1 723401 724432 D 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 723401..724432 Shigella flexneri 5 str. 8401 4209929 YP_688232.1 CDS nadD NC_008258.1 724434 725075 D 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 724434..725075 Shigella flexneri 5 str. 8401 4209930 YP_688233.1 CDS phpB NC_008258.1 725099 725710 D a phosphohistidine protein; Code: G; COG: COG0406; phosphohistidine protein PhpB 725099..725710 Shigella flexneri 5 str. 8401 4209931 YP_688234.1 CDS ybeB NC_008258.1 725970 726287 D Code: S; COG: COG0799; hypothetical protein 725970..726287 Shigella flexneri 5 str. 8401 4209932 YP_688235.1 CDS ybeA NC_008258.1 726291 726758 D SPOUT methyltransferase; crystal structure shows homodimer; in Escherichia coli this protein methylates pseudouridine at position 1915 of the 23S ribosomal RNA; rRNA large subunit methyltransferase 726291..726758 Shigella flexneri 5 str. 8401 4209933 YP_688236.1 CDS mrdA NC_008258.1 726789 728690 D Code: M; COG: COG0768; penicillin-binding protein 2 726789..728690 Shigella flexneri 5 str. 8401 4209934 YP_688237.1 CDS mrdB NC_008258.1 728693 729805 D Code: D; COG: COG0772; cell wall shape-determining protein 728693..729805 Shigella flexneri 5 str. 8401 4209935 YP_688238.1 CDS rlpA NC_008258.1 729816 730904 D a minor lipoprotein; Code: M; COG: COG0797; rare lipoprotein A 729816..730904 Shigella flexneri 5 str. 8401 4209936 YP_688239.1 CDS dacA NC_008258.1 730971 732254 D penicillin-binding protein 5; removes C-terminal D-alanyl residues from sugar-peptide cell wall precursors; D-alanyl-D-alanine carboxypeptidase fraction A 730971..732254 Shigella flexneri 5 str. 8401 4209937 YP_688240.1 CDS ybeD NC_008258.1 732365 732628 D Code: S; COG: COG2921; hypothetical protein 732365..732628 Shigella flexneri 5 str. 8401 4209938 YP_688241.1 CDS lipB NC_008258.1 732729 733370 D 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 732729..733370 Shigella flexneri 5 str. 8401 4209939 YP_688242.1 CDS ybeF NC_008258.1 733629 734582 D Code: K; COG: COG0583; DNA-binding transcriptional regulator 733629..734582 Shigella flexneri 5 str. 8401 4209940 YP_688243.1 CDS lipA NC_008258.1 734806 735756 D 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 734806..735756 Shigella flexneri 5 str. 8401 4209941 YP_688244.1 CDS tatE NC_008258.1 735857 736060 R 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 E complement(735857..736060) Shigella flexneri 5 str. 8401 4209942 YP_688245.1 CDS ybeM NC_008258.1 736189 736977 R Code: R; COG: COG0388; amidase complement(736189..736977) Shigella flexneri 5 str. 8401 4209943 YP_688246.1 CDS crcB NC_008258.1 737070 737453 D 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 737070..737453 Shigella flexneri 5 str. 8401 4209944 YP_688247.1 CDS cspE NC_008258.1 737507 737800 R 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 complement(737507..737800) Shigella flexneri 5 str. 8401 4209945 YP_688248.1 CDS pagP NC_008258.1 737891 738475 R catalyzes the transfer of palmitate to lipid A; palmitoyl transferase complement(737891..738475) Shigella flexneri 5 str. 8401 4209946 YP_688249.1 CDS dcuC NC_008258.1 739040 740425 D responsible for the transport of C4-dicarboxylates during anaerobic growth; C4-dicarboxylate transporter DcuC 739040..740425 Shigella flexneri 5 str. 8401 4209947 YP_688250.1 CDS SFV_0706 NC_008258.1 741145 741654 R repressor protein complement(741145..741654) Shigella flexneri 5 str. 8401 4209949 YP_688251.1 CDS SFV_0707 NC_008258.1 742037 743671 D Code: L; COG: COG2801; phage transposase 742037..743671 Shigella flexneri 5 str. 8401 4209950 YP_688252.1 CDS SFV_0708 NC_008258.1 743733 744035 D Code: L; COG: COG2963; IS600 ORF1 743733..744035 Shigella flexneri 5 str. 8401 4209951 YP_688253.1 CDS SFV_0709 NC_008258.1 744176 744889 D Code: L; COG: COG2801; IS600 ORF2 744176..744889 Shigella flexneri 5 str. 8401 4209952 YP_688254.1 CDS SFV_0710 NC_008258.1 745173 746114 R bacteriophage protein complement(745173..746114) Shigella flexneri 5 str. 8401 4209953 YP_688255.1 CDS SFV_0711 NC_008258.1 746126 746632 R bacteriophage protein complement(746126..746632) Shigella flexneri 5 str. 8401 4209954 YP_688256.1 CDS SFV_0712 NC_008258.1 746636 747856 R bacteriophage protein complement(746636..747856) Shigella flexneri 5 str. 8401 4209955 YP_688257.1 CDS SFV_0713 NC_008258.1 748494 749960 R bacteriophage protein complement(748494..749960) Shigella flexneri 5 str. 8401 4209956 YP_688258.1 CDS SFV_0714 NC_008258.1 749960 750727 R bacteriophage protein complement(749960..750727) Shigella flexneri 5 str. 8401 4209957 YP_688259.1 CDS SFV_0715 NC_008258.1 750712 751551 R Code: L; COG: COG2801; IS2 ORF2 complement(750712..751551) Shigella flexneri 5 str. 8401 4209958 YP_688260.1 CDS SFV_0716 NC_008258.1 751575 751940 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(751575..751940) Shigella flexneri 5 str. 8401 4207192 YP_688261.1 CDS SFV_0717 NC_008258.1 752016 752717 R bacteriophage protein complement(752016..752717) Shigella flexneri 5 str. 8401 4207193 YP_688262.1 CDS SFV_0718 NC_008258.1 752650 753414 R bacteriophage protein complement(752650..753414) Shigella flexneri 5 str. 8401 4207194 YP_688263.1 CDS SFV_0719 NC_008258.1 754528 754830 D Code: L; COG: COG2963; IS911 ORF1 754528..754830 Shigella flexneri 5 str. 8401 4207195 YP_688264.1 CDS SFV_0720 NC_008258.1 755131 755697 D IS911 ORF2 755131..755697 Shigella flexneri 5 str. 8401 4207196 YP_688265.1 CDS SFV_0721 NC_008258.1 755703 755951 R endopeptidase complement(755703..755951) Shigella flexneri 5 str. 8401 4207197 YP_688266.1 CDS SFV_0722 NC_008258.1 755936 756202 R IS2 ORF2 complement(755936..756202) Shigella flexneri 5 str. 8401 4207198 YP_688267.1 CDS SFV_0723 NC_008258.1 756237 757838 R Code: L; COG: COG3436; ISSfl4 ORF3 complement(756237..757838) Shigella flexneri 5 str. 8401 4207199 YP_688268.1 CDS SFV_0724 NC_008258.1 757858 758205 R Code: L; COG: COG3436; ISSfl4 ORF2 complement(757858..758205) Shigella flexneri 5 str. 8401 4207200 YP_688269.1 CDS SFV_0725 NC_008258.1 758202 758876 R ISSfl4 ORF1 complement(758202..758876) Shigella flexneri 5 str. 8401 4207201 YP_688270.1 CDS ybcS NC_008258.1 758930 759445 R Code: R; COG: COG3772; bacteriophage lambda lysozyme complement(758930..759445) Shigella flexneri 5 str. 8401 4207202 YP_688271.1 CDS SFV_0727 NC_008258.1 759638 759940 D Code: L; COG: COG2963; IS600 ORF1 759638..759940 Shigella flexneri 5 str. 8401 4207203 YP_688272.1 CDS SFV_0728 NC_008258.1 760081 760794 D Code: L; COG: COG2801; IS600 ORF2 760081..760794 Shigella flexneri 5 str. 8401 4207204 YP_688273.1 CDS SFV_0733 NC_008258.1 762658 762948 R bacteriophage protein complement(762658..762948) Shigella flexneri 5 str. 8401 4207401 YP_688274.1 CDS SFV_0734 NC_008258.1 762948 763547 R prophage protein complement(762948..763547) Shigella flexneri 5 str. 8401 4207402 YP_688275.1 CDS SFV_0735 NC_008258.1 763586 763873 R hypothetical protein complement(763586..763873) Shigella flexneri 5 str. 8401 4207403 YP_688276.1 CDS SFV_0736 NC_008258.1 764506 765192 R Code: S; COG: COG1636; hypothetical protein complement(764506..765192) Shigella flexneri 5 str. 8401 4207404 YP_688277.1 CDS SFV_0737 NC_008258.1 765340 765696 R bacteriophage protein complement(765340..765696) Shigella flexneri 5 str. 8401 4207405 YP_688278.1 CDS SFV_0739 NC_008258.1 767083 767721 R bacteriophage protein complement(767083..767721) Shigella flexneri 5 str. 8401 4207407 YP_688279.1 CDS ydaT NC_008258.1 767799 768104 R bacteriophage protein complement(767799..768104) Shigella flexneri 5 str. 8401 4207408 YP_688280.1 CDS SFV_0741 NC_008258.1 768206 768433 R DNA-binding transcriptional regulator DicC complement(768206..768433) Shigella flexneri 5 str. 8401 4207409 YP_688281.1 CDS SFV_0742 NC_008258.1 769276 769479 D hypothetical protein 769276..769479 Shigella flexneri 5 str. 8401 4207410 YP_688282.2 CDS SFV_0743 NC_008258.1 769721 770626 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(769721..770626) Shigella flexneri 5 str. 8401 4207411 YP_688283.1 CDS SFV_0744 NC_008258.1 770584 770949 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(770584..770949) Shigella flexneri 5 str. 8401 4207412 YP_688284.1 CDS SFV_0745 NC_008258.1 771497 772345 D bacteriophage protein 771497..772345 Shigella flexneri 5 str. 8401 4207413 YP_688285.1 CDS SFV_0746 NC_008258.1 772838 773551 R Code: L; COG: COG2801; IS600 ORF2 complement(772838..773551) Shigella flexneri 5 str. 8401 4207414 YP_688286.1 CDS SFV_0747 NC_008258.1 773692 773994 R Code: L; COG: COG2963; IS600 ORF1 complement(773692..773994) Shigella flexneri 5 str. 8401 4207415 YP_688287.1 CDS SFV_0748 NC_008258.1 774060 774677 D hypothetical protein 774060..774677 Shigella flexneri 5 str. 8401 4207416 YP_688288.1 CDS ipaH_1 NC_008258.1 774857 776683 R Code: S; COG: COG4886; invasion plasmid antigen complement(774857..776683) Shigella flexneri 5 str. 8401 4207417 YP_688289.1 CDS ybhE NC_008258.1 777565 778560 D catalyzes the hydrolysis of 6-phosphogluconolactone to 6-phosphogluconate; 6-phosphogluconolactonase 777565..778560 Shigella flexneri 5 str. 8401 4207418 YP_688290.1 CDS ybhH NC_008258.1 779738 780790 D Code: S; COG: COG2828; hypothetical protein 779738..780790 Shigella flexneri 5 str. 8401 4207324 YP_688291.1 CDS ybhI NC_008258.1 780866 782299 D Code: P; COG: COG0471; membrane pump protein 780866..782299 Shigella flexneri 5 str. 8401 4207325 YP_688292.1 CDS ybhJ NC_008258.1 782482 784662 D Code: C; COG: COG1048; hypothetical protein 782482..784662 Shigella flexneri 5 str. 8401 4207326 YP_688293.1 CDS ybhC NC_008258.1 784803 786086 R outer membrane lipoprotein that catalyzes the hydrolysis of the thioester bond in palmitoyl-CoA; YbhC localizes to the cellular poles; member of pectinesterase; pectinesterase complement(784803..786086) Shigella flexneri 5 str. 8401 4207327 YP_688294.1 CDS ybhB NC_008258.1 786238 786714 R YbhB; similar to rat and human kinase inhibitory proteins; kinase inhibitor protein complement(786238..786714) Shigella flexneri 5 str. 8401 4207328 YP_688295.1 CDS bioA NC_008258.1 786773 788173 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(786773..788173) Shigella flexneri 5 str. 8401 4207330 YP_688296.1 CDS bioB NC_008258.1 788149 789189 D Code: H; COG: COG0502; biotin synthesis sulfur insertion protein 788149..789189 Shigella flexneri 5 str. 8401 4207329 YP_688297.1 CDS bioF NC_008258.1 789186 790340 D catalyzes the formation of 8-amino-7-oxononanoate from 6-carboxyhexanoyl-CoA and L-alanine; 8-amino-7-oxononanoate synthase 789186..790340 Shigella flexneri 5 str. 8401 4207331 YP_688298.1 CDS bioC NC_008258.1 790327 791082 D 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 790327..791082 Shigella flexneri 5 str. 8401 4207332 YP_688299.1 CDS bioD NC_008258.1 791075 791752 D DTB synthetase; dethiobiotin synthase; involved in production of dethiobiotin from ATP and 7,8-diaminononanoate and carbon dioxide; contains magnesium; dithiobiotin synthetase 791075..791752 Shigella flexneri 5 str. 8401 4207333 YP_688300.1 CDS uvrB NC_008258.1 792331 794352 D 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 792331..794352 Shigella flexneri 5 str. 8401 4207334 YP_688301.1 CDS ybhK NC_008258.1 794544 795452 R Code: S; COG: COG0391; structural protein complement(794544..795452) Shigella flexneri 5 str. 8401 4207335 YP_688302.1 CDS moaA NC_008258.1 795817 796839 D together with moaC, is involved in the conversion of a guanosine derivative (GXP) into molybdopterin precursor Z; molybdenum cofactor biosynthesis protein A 795817..796839 Shigella flexneri 5 str. 8401 4207336 YP_688303.1 CDS moaB NC_008258.1 796861 797373 D Code: H; COG: COG0521; molybdopterin biosynthesis protein B 796861..797373 Shigella flexneri 5 str. 8401 4207337 YP_688304.1 CDS moaC NC_008258.1 797376 797861 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 797376..797861 Shigella flexneri 5 str. 8401 4207338 YP_688305.1 CDS moaD NC_008258.1 797854 798099 D catalyzes the conversion of molybdopterin precursor Z into molybdopterin; molybdopterin synthase small subunit 797854..798099 Shigella flexneri 5 str. 8401 4207339 YP_688306.1 CDS moaE NC_008258.1 798101 798553 D catalyzes the conversion of molybdopterin precursor Z into molybdopterin; molybdopterin guanine dinucleotide biosynthesis protein MoaE 798101..798553 Shigella flexneri 5 str. 8401 4207340 YP_688307.1 CDS ybhL NC_008258.1 798690 799394 D Code: R; COG: COG0670; hypothetical protein 798690..799394 Shigella flexneri 5 str. 8401 4207341 YP_688308.1 CDS ybhM NC_008258.1 799599 800312 D Code: R; COG: COG0670; hypothetical protein 799599..800312 Shigella flexneri 5 str. 8401 4210616 YP_688309.1 CDS ybhN NC_008258.1 800348 801304 R Code: S; COG: COG0392; hypothetical protein complement(800348..801304) Shigella flexneri 5 str. 8401 4210617 YP_688310.1 CDS ybhO NC_008258.1 801304 802545 R Code: I; COG: COG1502; cardiolipin synthase 2 complement(801304..802545) Shigella flexneri 5 str. 8401 4210618 YP_688311.1 CDS ybhP NC_008258.1 802542 803303 R Code: R; COG: COG3568; hypothetical protein complement(802542..803303) Shigella flexneri 5 str. 8401 4210619 YP_688312.1 CDS ybhQ NC_008258.1 803436 803846 D hypothetical protein 803436..803846 Shigella flexneri 5 str. 8401 4210620 YP_688313.1 CDS ybhS NC_008258.1 804926 806059 R Code: V; COG: COG0842; hypothetical protein complement(804926..806059) Shigella flexneri 5 str. 8401 4210622 YP_688314.1 CDS ybhF NC_008258.1 806052 807788 R Code: V; COG: COG1131; ABC transporter ATP-binding protein complement(806052..807788) Shigella flexneri 5 str. 8401 4210623 YP_688315.1 CDS SFV_0778 NC_008258.1 807781 808776 R Code: M; COG: COG0845; hypothetical protein complement(807781..808776) Shigella flexneri 5 str. 8401 4210624 YP_688316.1 CDS ybiH NC_008258.1 808779 809450 R Code: K; COG: COG1309; DNA-binding transcriptional regulator complement(808779..809450) Shigella flexneri 5 str. 8401 4210625 YP_688317.1 CDS rhlE NC_008258.1 809679 810899 D this helicase is not essential cell growth; ATP-dependent RNA helicase RhlE 809679..810899 Shigella flexneri 5 str. 8401 4210626 YP_688318.1 CDS ybiA NC_008258.1 811073 811555 R Code: S; COG: COG3236; hypothetical protein complement(811073..811555) Shigella flexneri 5 str. 8401 4210628 YP_688319.1 CDS dinG NC_008258.1 811540 813825 D helicase involved in DNA repair and perhaps also replication; ATP-dependent DNA helicase DinG 811540..813825 Shigella flexneri 5 str. 8401 4210627 YP_688320.1 CDS ybiB NC_008258.1 813853 814815 D Code: E; COG: COG0547; glycosyl transferase 813853..814815 Shigella flexneri 5 str. 8401 4210629 YP_688321.1 CDS ybiC NC_008258.1 814956 816041 D Code: C; COG: COG2055; hypothetical protein 814956..816041 Shigella flexneri 5 str. 8401 4210630 YP_688322.1 CDS ybiJ NC_008258.1 816270 816530 R hypothetical protein complement(816270..816530) Shigella flexneri 5 str. 8401 4210631 YP_688323.1 CDS ybiI NC_008258.1 816795 817061 R Code: T; COG: COG1734; hypothetical protein complement(816795..817061) Shigella flexneri 5 str. 8401 4210632 YP_688324.1 CDS ybiX NC_008258.1 817135 817812 R Code: S; COG: COG3128; hydroxylase complement(817135..817812) Shigella flexneri 5 str. 8401 4210633 YP_688325.1 CDS SFV_0788 NC_008258.1 819910 821256 D Code: L; COG: COG3385; IS4 orf 819910..821256 Shigella flexneri 5 str. 8401 4210634 YP_688326.1 CDS ybiM NC_008258.1 821839 822243 R hypothetical protein complement(821839..822243) Shigella flexneri 5 str. 8401 4209424 YP_688327.1 CDS ybiN NC_008258.1 822294 823301 D Code: R; COG: COG3129; SAM-dependent methyltransferase 822294..823301 Shigella flexneri 5 str. 8401 4209425 YP_688328.1 CDS ybiO NC_008258.1 823298 825241 R transport protein complement(823298..825241) Shigella flexneri 5 str. 8401 4209426 YP_688329.1 CDS glnQ NC_008258.1 825783 826505 R similar to ATP-binding component of ABC transporters; glutamine ABC transporter ATP-binding protein complement(825783..826505) Shigella flexneri 5 str. 8401 4209427 YP_688330.1 CDS glnP NC_008258.1 826502 827161 R similar to permease component of ABC transporters; mutations impair ability of Escherichia coli to transport and utilize glutamine; glutamine ABC transporter permease complement(826502..827161) Shigella flexneri 5 str. 8401 4209428 YP_688331.1 CDS glnH NC_008258.1 827300 828046 R similar to periplasmic-binding component of ABC transporters; glutamine ABC transporter substrate-binding protein complement(827300..828046) Shigella flexneri 5 str. 8401 4209429 YP_688332.1 CDS dps NC_008258.1 828450 829076 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(828450..829076) Shigella flexneri 5 str. 8401 4209430 YP_688333.1 CDS ybiF NC_008258.1 829252 830139 R Code: R; COG: COG5006; threonine and homoserine efflux system complement(829252..830139) Shigella flexneri 5 str. 8401 4209431 YP_688334.1 CDS ompX NC_008258.1 830492 831007 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 830492..831007 Shigella flexneri 5 str. 8401 4209432 YP_688335.1 CDS ybiP NC_008258.1 831055 832638 R Code: R; COG: COG2194; hypothetical protein complement(831055..832638) Shigella flexneri 5 str. 8401 4209433 YP_688336.1 CDS SFV_0800 NC_008258.1 833224 833691 D Transcriptional regulator that represses the manganese transporter MntH when manganese is present; manganese transport regulator MntR 833224..833691 Shigella flexneri 5 str. 8401 4209434 YP_688337.1 CDS ybiR NC_008258.1 833688 834806 D Code: P; COG: COG0471; hypothetical protein 833688..834806 Shigella flexneri 5 str. 8401 4209435 YP_688338.1 CDS ybiS NC_008258.1 834864 835784 R Code: S; COG: COG1376; hypothetical protein complement(834864..835784) Shigella flexneri 5 str. 8401 4209436 YP_688339.1 CDS ybiT NC_008258.1 836003 837595 D Code: R; COG: COG0488; ABC transporter ATP-binding protein 836003..837595 Shigella flexneri 5 str. 8401 4209437 YP_688340.1 CDS ybiU NC_008258.1 837836 839101 R hypothetical protein complement(837836..839101) Shigella flexneri 5 str. 8401 4209438 YP_688341.1 CDS SFV_0805 NC_008258.1 839253 840068 R Code: R; COG: COG0561; hypothetical protein complement(839253..840068) Shigella flexneri 5 str. 8401 4209439 YP_688342.1 CDS ybiW NC_008258.1 840214 842646 R Code: C; COG: COG1882; formate acetyltransferase complement(840214..842646) Shigella flexneri 5 str. 8401 4209440 YP_688343.1 CDS ybiY NC_008258.1 842652 843551 R Code: O; COG: COG1180; pyruvate formate-lyase 2 activating enzyme complement(842652..843551) Shigella flexneri 5 str. 8401 4209441 YP_688344.2 CDS mipB NC_008258.1 843682 844344 D similar to transaldolase from Escherichia coli; many organisms have multiple copies; fructose-6-phosphate aldolase 843682..844344 Shigella flexneri 5 str. 8401 4209442 YP_688345.1 CDS moeB NC_008258.1 844523 845248 R ATP-dependent adenylate transferase, transfers adenyl moiety to the MoeD subunit of molybdopterin synthase; molybdopterin biosynthesis protein MoeB complement(844523..845248) Shigella flexneri 5 str. 8401 4208855 YP_688346.1 CDS moeA NC_008258.1 845272 846507 R is involved in the formation of active molybdenum cofactor and the chelation of molybdenum; molybdopterin biosynthesis protein MoeA complement(845272..846507) Shigella flexneri 5 str. 8401 4208856 YP_688347.1 CDS ybiK NC_008258.1 846769 847677 D Code: E; COG: COG1446; L-asparaginase 846769..847677 Shigella flexneri 5 str. 8401 4208857 YP_688348.1 CDS SFV_0812 NC_008258.1 847697 849535 D with GsiBCD is involved in glutathione import; GsiA contains 2 ATP-binding domains; glutathione transporter ATP-binding protein 847697..849535 Shigella flexneri 5 str. 8401 4208858 YP_688349.1 CDS SFV_0813 NC_008258.1 849555 851099 D Code: E; COG: COG0747; transport protein 849555..851099 Shigella flexneri 5 str. 8401 4208859 YP_688350.1 CDS SFV_0814 NC_008258.1 851117 852037 D Code: EP; COG: COG0601; transport system permease 851117..852037 Shigella flexneri 5 str. 8401 4208860 YP_688351.1 CDS SFV_0816 NC_008258.1 853053 855479 D hypothetical protein 853053..855479 Shigella flexneri 5 str. 8401 4208862 YP_688352.1 CDS SFV_0817 NC_008258.1 855487 856815 D hypothetical protein 855487..856815 Shigella flexneri 5 str. 8401 4208863 YP_688353.1 CDS rimO NC_008258.1 856862 858187 R catalyzes the methylthiolation of an aspartic acid residue of the S12 protein of the 30S ribosomal subunit; ribosomal protein S12 methylthiotransferase complement(856862..858187) Shigella flexneri 5 str. 8401 4208864 YP_688354.1 CDS bssR NC_008258.1 858400 858783 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 858400..858783 Shigella flexneri 5 str. 8401 4208865 YP_688355.1 CDS yliJ NC_008258.1 860005 860583 R Code: O; COG: COG0625; transferase complement(860005..860583) Shigella flexneri 5 str. 8401 4208867 YP_688356.1 CDS SFV_0823 NC_008258.1 861899 862201 D Code: L; COG: COG2963; IS600 ORF1 861899..862201 Shigella flexneri 5 str. 8401 4208869 YP_688357.1 CDS SFV_0824 NC_008258.1 862342 863055 D Code: L; COG: COG2801; IS600 ORF2 862342..863055 Shigella flexneri 5 str. 8401 4208870 YP_688358.1 CDS deoR NC_008258.1 863392 864150 R Code: KG; COG: COG1349; DNA-binding transcriptional repressor DeoR complement(863392..864150) Shigella flexneri 5 str. 8401 4208871 YP_688359.1 CDS ybjG NC_008258.1 864208 864819 R Code: I; COG: COG0671; undecaprenyl pyrophosphate phosphatase complement(864208..864819) Shigella flexneri 5 str. 8401 4208872 YP_688360.1 CDS cmr NC_008258.1 865089 866315 D Code: GEPR; COG: COG0477; chloramphenicol resistance pump Cmr 865089..866315 Shigella flexneri 5 str. 8401 4208873 YP_688361.1 CDS ybjH NC_008258.1 866356 866634 R hypothetical protein complement(866356..866634) Shigella flexneri 5 str. 8401 4208874 YP_688362.1 CDS SFV_0829 NC_008258.1 866726 867541 R Code: R; COG: COG0561; hypothetical protein complement(866726..867541) Shigella flexneri 5 str. 8401 4207780 YP_688363.1 CDS SFV_0830 NC_008258.1 867541 868695 R Code: GEPR; COG: COG0477; DeoR-type transcriptional regulator complement(867541..868695) Shigella flexneri 5 str. 8401 4207781 YP_688364.1 CDS SFV_0831 NC_008258.1 868833 869369 D Code: S; COG: COG3226; DeoR-type transcriptional regulator 868833..869369 Shigella flexneri 5 str. 8401 4207782 YP_688365.1 CDS SFV_0832 NC_008258.1 869544 871229 R Code: R; COG: COG2985; hypothetical protein complement(869544..871229) Shigella flexneri 5 str. 8401 4207783 YP_688366.1 CDS ybjM NC_008258.1 871499 871876 D hypothetical protein 871499..871876 Shigella flexneri 5 str. 8401 4207784 YP_688367.1 CDS grxA NC_008258.1 871906 872163 R 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 1 complement(871906..872163) Shigella flexneri 5 str. 8401 4207785 YP_688368.1 CDS ybjC NC_008258.1 872323 872610 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 872323..872610 Shigella flexneri 5 str. 8401 4207786 YP_688369.1 CDS mdaA NC_008258.1 872594 873316 D NADPH-dependent; oxygen-insensitive; catalyzes the reduction of nitroaromatic compounds; nitroreductase A 872594..873316 Shigella flexneri 5 str. 8401 4207787 YP_688370.1 CDS rimK NC_008258.1 873377 874279 D responsible for the addition of glutamate residues to the C-terminus of ribosomal protein S6; ribosomal protein S6 modification protein 873377..874279 Shigella flexneri 5 str. 8401 4207788 YP_688371.1 CDS ybjN NC_008258.1 874355 874843 D sensory transduction regulator 874355..874843 Shigella flexneri 5 str. 8401 4207789 YP_688372.1 CDS potF NC_008258.1 875120 876307 D Code: E; COG: COG0687; spermidine/putrescine ABC transporter substrate-binding protein 875120..876307 Shigella flexneri 5 str. 8401 4207790 YP_688373.1 CDS potH NC_008258.1 877545 878498 D Code: E; COG: COG1176; putrescine ABC transporter membrane protein 877545..878498 Shigella flexneri 5 str. 8401 4207792 YP_688374.1 CDS potI NC_008258.1 878495 879340 D Code: E; COG: COG1177; putrescine ABC transporter membrane protein 878495..879340 Shigella flexneri 5 str. 8401 4207793 YP_688375.1 CDS ybjO NC_008258.1 879400 879888 D hypothetical protein 879400..879888 Shigella flexneri 5 str. 8401 4207794 YP_688376.1 CDS rumB NC_008258.1 879929 881056 D RNA uridine methyltransferase B; catalyzes the formation of 5-methyl-uridine at position 747 in 23S rRNA; 23S rRNA methyluridine methyltransferase 879929..881056 Shigella flexneri 5 str. 8401 4207795 YP_688377.1 CDS artJ NC_008258.1 881231 881962 R Code: ET; COG: COG0834; arginine ABC transporter substrate-binding protein complement(881231..881962) Shigella flexneri 5 str. 8401 4207796 YP_688378.1 CDS artM NC_008258.1 882254 882922 R with ArtPQJI acts to transport arginine across the inner membrane; arginine transporter permease subunit ArtM complement(882254..882922) Shigella flexneri 5 str. 8401 4207797 YP_688379.1 CDS artQ NC_008258.1 882922 883638 R with ArtPMJI transports arginine across the inner membrane; arginine transporter permease subunit ArtQ complement(882922..883638) Shigella flexneri 5 str. 8401 4207798 YP_688380.1 CDS artI NC_008258.1 883645 884376 R Code: ET; COG: COG0834; arginine ABC transporter substrate-binding protein complement(883645..884376) Shigella flexneri 5 str. 8401 4208576 YP_688381.1 CDS artP NC_008258.1 884394 885122 R With ArtMQJI transports arginine across the inner membrane; arginine transporter ATP-binding subunit complement(884394..885122) Shigella flexneri 5 str. 8401 4208577 YP_688382.1 CDS ybjP NC_008258.1 885340 885855 R induced during stationary phase and by acivicin (a glutamine analog); regulated by Lrp and RpoS; lipoprotein complement(885340..885855) Shigella flexneri 5 str. 8401 4208578 YP_688383.1 CDS SFV_0851 NC_008258.1 886504 887715 D hypothetical protein 886504..887715 Shigella flexneri 5 str. 8401 4208579 YP_688384.1 CDS insB NC_008258.1 887726 888229 R Code: L; COG: COG1662; IS1 ORF2 complement(887726..888229) Shigella flexneri 5 str. 8401 4208580 YP_688385.1 CDS SFV_0853 NC_008258.1 888343 889050 D hypothetical protein 888343..889050 Shigella flexneri 5 str. 8401 4208581 YP_688386.1 CDS SFV_0854 NC_008258.1 889261 889584 D Code: S; COG: COG0393; hypothetical protein 889261..889584 Shigella flexneri 5 str. 8401 4208582 YP_688387.1 CDS SFV_0855 NC_008258.1 889581 890411 D Code: V; COG: COG3023; regulator 889581..890411 Shigella flexneri 5 str. 8401 4208583 YP_688388.1 CDS SFV_0856 NC_008258.1 890408 891457 R Code: MG; COG: COG0451; nucleotide di-P-sugar epimerase or dehydratase complement(890408..891457) Shigella flexneri 5 str. 8401 4208584 YP_688389.1 CDS ybjT NC_008258.1 891520 892950 R Code: MG; COG: COG0702; dTDP-glucose enzyme complement(891520..892950) Shigella flexneri 5 str. 8401 4208585 YP_688390.1 CDS ybjU NC_008258.1 892961 893962 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(892961..893962) Shigella flexneri 5 str. 8401 4208586 YP_688391.1 CDS poxB NC_008258.1 893999 895717 R catalyzes the formation of acetate from pyruvate; pyruvate dehydrogenase complement(893999..895717) Shigella flexneri 5 str. 8401 4208587 YP_688392.1 CDS SFV_0860 NC_008258.1 895850 896818 R Code: C; COG: COG1018; HCP oxidoreductase, NADH-dependent complement(895850..896818) Shigella flexneri 5 str. 8401 4208588 YP_688393.1 CDS ybjW NC_008258.1 896830 898482 R catalyzes the reduction of hydroxylamine to ammonia and water; hydroxylamine reductase complement(896830..898482) Shigella flexneri 5 str. 8401 4208589 YP_688394.1 CDS ybjE NC_008258.1 898626 899573 R Code: S; COG: COG2431; surface protein complement(898626..899573) Shigella flexneri 5 str. 8401 4208590 YP_688395.1 CDS aqpZ NC_008258.1 899982 900677 R porin involved in osmoregulation allowing water to move into and out of the cell in response to osmotic pressure; aquaporin Z complement(899982..900677) Shigella flexneri 5 str. 8401 4208591 YP_688396.1 CDS insB NC_008258.1 900729 901232 R Code: L; COG: COG1662; IS1 ORF2 complement(900729..901232) Shigella flexneri 5 str. 8401 4208592 YP_688397.1 CDS SFV_0865 NC_008258.1 901307 901549 D IS1 encoded protein 901307..901549 Shigella flexneri 5 str. 8401 4208593 YP_688398.1 CDS ybjD NC_008258.1 901878 903536 D Code: L; COG: COG3593; hypothetical protein 901878..903536 Shigella flexneri 5 str. 8401 4208594 YP_688399.1 CDS ybjX NC_008258.1 903533 904525 R Code: S; COG: COG2990; hypothetical protein complement(903533..904525) Shigella flexneri 5 str. 8401 4208595 YP_688400.1 CDS SFV_0868 NC_008258.1 904594 904728 D hypothetical protein 904594..904728 Shigella flexneri 5 str. 8401 4208934 YP_688401.1 CDS SFV_0869 NC_008258.1 904613 905755 D confers macrolide resistance via active drug efflux; macrolide transporter subunit MacA 904613..905755 Shigella flexneri 5 str. 8401 4208935 YP_688402.1 CDS cspD NC_008258.1 907772 908026 R inhibits DNA replication at both initiation and elongation steps; stationary phase and starvation inducible; stationary phase/starvation inducible regulatory protein CspD complement(907772..908026) Shigella flexneri 5 str. 8401 4208937 YP_688403.1 CDS clpS NC_008258.1 908319 908639 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 908319..908639 Shigella flexneri 5 str. 8401 4208938 YP_688404.1 CDS clpA NC_008258.1 908670 910946 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 908670..910946 Shigella flexneri 5 str. 8401 4208939 YP_688405.1 CDS infA NC_008258.1 911690 911908 R stimulates the activities of the other two initiation factors, IF-2 and IF-3; translation initiation factor IF-1 complement(911690..911908) Shigella flexneri 5 str. 8401 4208941 YP_688406.1 CDS aat NC_008258.1 912193 912897 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(912193..912897) Shigella flexneri 5 str. 8401 4208942 YP_688407.1 CDS cydC NC_008258.1 912939 914660 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(912939..914660) Shigella flexneri 5 str. 8401 4208943 YP_688408.1 CDS cydD NC_008258.1 914661 916427 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(914661..916427) Shigella flexneri 5 str. 8401 4208944 YP_688409.1 CDS trxB NC_008258.1 916550 917515 R catalyzes the transfer of electrons from NADPH to thioredoxin; FAD/NAD(P) binding; thioredoxin reductase complement(916550..917515) Shigella flexneri 5 str. 8401 4208945 YP_688410.1 CDS lrp NC_008258.1 918059 918553 D 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 918059..918553 Shigella flexneri 5 str. 8401 4208946 YP_688411.1 CDS ftsK NC_008258.1 918688 922794 D DNA-binding membrane protein required for chromosome resolution and partitioning; DNA translocase FtsK 918688..922794 Shigella flexneri 5 str. 8401 4208947 YP_688412.1 CDS lolA NC_008258.1 922949 923560 D participates with LolB in the incorporation of lipoprotein into the outer membrane; outer-membrane lipoprotein carrier protein 922949..923560 Shigella flexneri 5 str. 8401 4208948 YP_688413.1 CDS ycaJ NC_008258.1 923571 924914 D Code: L; COG: COG2256; recombination factor protein RarA 923571..924914 Shigella flexneri 5 str. 8401 4208949 YP_688414.1 CDS serS NC_008258.1 925005 926297 D 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 925005..926297 Shigella flexneri 5 str. 8401 4208950 YP_688415.1 CDS dmsB NC_008258.1 928992 929609 D Code: C; COG: COG0437; anaerobic dimethyl sulfoxide reductase subunit B 928992..929609 Shigella flexneri 5 str. 8401 4207624 YP_688416.1 CDS dmsC NC_008258.1 929611 930402 D Code: R; COG: COG3302; anaerobic dimethyl sulfoxide reductase subunit C 929611..930402 Shigella flexneri 5 str. 8401 4207625 YP_688417.1 CDS ycaC NC_008258.1 930438 931064 R Code: Q; COG: COG1335; hypothetical protein complement(930438..931064) Shigella flexneri 5 str. 8401 4207626 YP_688418.1 CDS ycaD NC_008258.1 931379 932527 D Code: GEPR; COG: COG0477; MFS family transporter protein 931379..932527 Shigella flexneri 5 str. 8401 4207627 YP_688419.1 CDS SFV_0890 NC_008258.1 932840 933514 D ISSfl4 ORF1 932840..933514 Shigella flexneri 5 str. 8401 4207628 YP_688420.1 CDS SFV_0891 NC_008258.1 933511 933861 D Code: L; COG: COG3436; ISSfl4 ORF2 933511..933861 Shigella flexneri 5 str. 8401 4207629 YP_688421.1 CDS SFV_0892 NC_008258.1 933858 934400 D ISSfl4 ORF3 933858..934400 Shigella flexneri 5 str. 8401 4207630 YP_688422.1 CDS SFV_0893 NC_008258.1 934406 934732 D Code: L; COG: COG2963; IS629 ORF1 934406..934732 Shigella flexneri 5 str. 8401 4207631 YP_688423.1 CDS SFV_0894 NC_008258.1 934863 935477 D Code: L; COG: COG2801; IS629 ORF2 934863..935477 Shigella flexneri 5 str. 8401 4207632 YP_688424.1 CDS SFV_0895 NC_008258.1 935493 935681 D ISSfl4 ORF3 935493..935681 Shigella flexneri 5 str. 8401 4207633 YP_688425.1 CDS SFV_0896 NC_008258.1 936068 936334 R IS1 encoded protein complement(936068..936334) Shigella flexneri 5 str. 8401 4207634 YP_688426.1 CDS insB NC_008258.1 936409 936912 D Code: L; COG: COG1662; IS1 ORF2 936409..936912 Shigella flexneri 5 str. 8401 4207635 YP_688427.1 CDS ycaN NC_008258.1 936914 937702 D Code: K; COG: COG0583; LysR family transcriptional regulator 936914..937702 Shigella flexneri 5 str. 8401 4207636 YP_688428.1 CDS SFV_0900 NC_008258.1 938156 938458 D Code: L; COG: COG2963; IS600 ORF1 938156..938458 Shigella flexneri 5 str. 8401 4207638 YP_688429.1 CDS SFV_0901 NC_008258.1 938599 939312 D Code: L; COG: COG2801; IS600 ORF2 938599..939312 Shigella flexneri 5 str. 8401 4207639 YP_688430.1 CDS pflA NC_008258.1 939695 940435 R activates pyruvate formate-lyase 1 under anaerobic conditions; pyruvate formate lyase-activating enzyme 1 complement(939695..940435) Shigella flexneri 5 str. 8401 4207640 YP_688431.1 CDS pflB NC_008258.1 940627 942909 R Code: C; COG: COG1882; formate acetyltransferase 1 complement(940627..942909) Shigella flexneri 5 str. 8401 4207641 YP_688432.1 CDS focA NC_008258.1 942964 943995 R Code: P; COG: COG2116; formate transporter complement(942964..943995) Shigella flexneri 5 str. 8401 4207642 YP_688433.1 CDS ycaO NC_008258.1 944227 946020 R Code: S; COG: COG1944; hypothetical protein complement(944227..946020) Shigella flexneri 5 str. 8401 4207643 YP_688434.2 CDS serC NC_008258.1 946942 948030 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 946942..948030 Shigella flexneri 5 str. 8401 4208206 YP_688435.1 CDS aroA NC_008258.1 948101 949384 D catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis; 3-phosphoshikimate 1-carboxyvinyltransferase 948101..949384 Shigella flexneri 5 str. 8401 4208207 YP_688436.1 CDS SFV_0909 NC_008258.1 949510 950856 D Code: L; COG: COG3385; IS4 orf 949510..950856 Shigella flexneri 5 str. 8401 4208208 YP_688437.1 CDS ycaL NC_008258.1 950968 951756 D Code: O; COG: COG0501; heat shock protein 950968..951756 Shigella flexneri 5 str. 8401 4208209 YP_688438.1 CDS cmk NC_008258.1 951929 952612 D Catalyzes the formation of (d)CDP from ATP and (d)CMP; cytidylate kinase 951929..952612 Shigella flexneri 5 str. 8401 4208210 YP_688439.1 CDS rpsA NC_008258.1 952723 954396 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 952723..954396 Shigella flexneri 5 str. 8401 4208211 YP_688440.1 CDS ihfB NC_008258.1 954556 954840 D 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 954556..954840 Shigella flexneri 5 str. 8401 4208212 YP_688441.1 CDS ycaI NC_008258.1 955438 956634 D Code: R; COG: COG0658; hypothetical protein 955438..956634 Shigella flexneri 5 str. 8401 4208213 YP_688442.1 CDS msbA NC_008258.1 957344 959092 D multicopy suppressor of htrB; involved in the transport of lipid A across the inner membrane; lipid transporter ATP-binding/permease 957344..959092 Shigella flexneri 5 str. 8401 4208214 YP_688443.1 CDS lpxK NC_008258.1 959089 960075 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 959089..960075 Shigella flexneri 5 str. 8401 4208215 YP_688444.1 CDS ycaQ NC_008258.1 960112 961344 D Code: S; COG: COG3214; hypothetical protein 960112..961344 Shigella flexneri 5 str. 8401 4208216 YP_688445.1 CDS ycaR NC_008258.1 961396 961578 D Code: S; COG: COG2835; hypothetical protein 961396..961578 Shigella flexneri 5 str. 8401 4208217 YP_688446.1 CDS kdsB NC_008258.1 961575 962321 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 961575..962321 Shigella flexneri 5 str. 8401 4208218 YP_688447.1 CDS SFV_0920 NC_008258.1 962475 963368 D hypothetical protein 962475..963368 Shigella flexneri 5 str. 8401 4208219 YP_688448.1 CDS ycbC NC_008258.1 963345 964124 R Code: S; COG: COG1434; hypothetical protein complement(963345..964124) Shigella flexneri 5 str. 8401 4208220 YP_688449.1 CDS smtA NC_008258.1 964260 965045 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 964260..965045 Shigella flexneri 5 str. 8401 4208221 YP_688450.1 CDS mukF NC_008258.1 965042 966364 D acts with MukB and MukE to condense the chromosome and allow for segregation during cell division; condesin subunit F 965042..966364 Shigella flexneri 5 str. 8401 4208222 YP_688451.1 CDS mukE NC_008258.1 966318 967049 D acts with MukB and MukF to condense the chromosome and allow for segregation during cell division; condesin subunit E 966318..967049 Shigella flexneri 5 str. 8401 4208223 YP_688452.1 CDS mukB NC_008258.1 967049 971509 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 967049..971509 Shigella flexneri 5 str. 8401 4208556 YP_688453.1 CDS SFV_0926 NC_008258.1 971654 973000 D Code: L; COG: COG3385; IS4 orf 971654..973000 Shigella flexneri 5 str. 8401 4208557 YP_688454.1 CDS ycbB NC_008258.1 973208 975055 D Code: S; COG: COG2989; hypothetical protein 973208..975055 Shigella flexneri 5 str. 8401 4208558 YP_688455.1 CDS ycbK NC_008258.1 975237 975785 D Code: S; COG: COG3108; hypothetical protein 975237..975785 Shigella flexneri 5 str. 8401 4208559 YP_688456.1 CDS ycbL NC_008258.1 975812 976459 D Code: R; COG: COG0491; hypothetical protein 975812..976459 Shigella flexneri 5 str. 8401 4208560 YP_688457.1 CDS aspC NC_008258.1 976682 977872 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(976682..977872) Shigella flexneri 5 str. 8401 4208561 YP_688458.1 CDS ompF NC_008258.1 978057 979145 R outer membrane porin F; 1a; Ia; b; outer membrane protein F complement(978057..979145) Shigella flexneri 5 str. 8401 4208562 YP_688459.1 CDS asnC NC_008258.1 979746 981146 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(979746..981146) Shigella flexneri 5 str. 8401 4208563 YP_688460.1 CDS pncB NC_008258.1 981315 982565 R catalyzes the formation of nictonate and 5-phospho-alpha-D-ribose 1-diphosphate from nicotinate D-ribonucleotide and diphosphate; nicotinate phosphoribosyltransferase complement(981315..982565) Shigella flexneri 5 str. 8401 4208564 YP_688461.1 CDS pepN NC_008258.1 982783 985398 D Code: E; COG: COG0308; aminopeptidase 982783..985398 Shigella flexneri 5 str. 8401 4208565 YP_688462.1 CDS ssuB NC_008258.1 985605 986372 R part of the ABC type transport system SsuABC for aliphatic sulfonates; with SsuA being the periplasmic substrate-binding subunit, SsuB the ATP-binding subunit and SsuC the permease; aliphatic sulfonate ABC transporter ATP-binding protein complement(985605..986372) Shigella flexneri 5 str. 8401 4208566 YP_688463.1 CDS ycbM NC_008258.1 986369 987022 R Code: P; COG: COG0600; transport system permease complement(986369..987022) Shigella flexneri 5 str. 8401 4208567 YP_688464.1 CDS SFV_0937 NC_008258.1 986997 987836 R Code: L; COG: COG2801; IS2 ORF2 complement(986997..987836) Shigella flexneri 5 str. 8401 4208568 YP_688465.1 CDS SFV_0938 NC_008258.1 987860 988225 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(987860..988225) Shigella flexneri 5 str. 8401 4208569 YP_688466.1 CDS ycbN NC_008258.1 988508 989653 R catalyzes the release of sulfite from alkanesulfonates; alkanesulfonate monooxygenase complement(988508..989653) Shigella flexneri 5 str. 8401 4208570 YP_688467.1 CDS ycbO NC_008258.1 989650 990651 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(989650..990651) Shigella flexneri 5 str. 8401 4208571 YP_688468.1 CDS ycbP NC_008258.1 990602 991177 R Code: R; COG: COG0431; NAD(P)H-dependent FMN reductase complement(990602..991177) Shigella flexneri 5 str. 8401 4208572 YP_688469.1 CDS SFV_0942 NC_008258.1 991096 991416 R IS1 encoded protein complement(991096..991416) Shigella flexneri 5 str. 8401 4208573 YP_688470.1 CDS insB NC_008258.1 991509 992012 D Code: L; COG: COG1662; IS1 ORF2 991509..992012 Shigella flexneri 5 str. 8401 4208574 YP_688471.1 CDS SFV_0944 NC_008258.1 992301 992771 D Code: NU; COG: COG3539; fimbrial-like protein 992301..992771 Shigella flexneri 5 str. 8401 4208575 YP_688472.1 CDS insB NC_008258.1 992765 993058 R IS1 ORF2 complement(992765..993058) Shigella flexneri 5 str. 8401 4208746 YP_688473.1 CDS insB NC_008258.1 993095 993268 R IS1 ORF2 complement(993095..993268) Shigella flexneri 5 str. 8401 4208747 YP_688474.1 CDS SFV_0947 NC_008258.1 993343 993543 D IS1 encoded protein 993343..993543 Shigella flexneri 5 str. 8401 4208748 YP_688475.1 CDS ycbR NC_008258.1 993712 994413 D Code: NU; COG: COG3121; chaperone 993712..994413 Shigella flexneri 5 str. 8401 4208749 YP_688476.1 CDS ycbS NC_008258.1 994438 997038 D Code: NU; COG: COG3188; outer membrane protein 994438..997038 Shigella flexneri 5 str. 8401 4208750 YP_688477.1 CDS SFV_0950 NC_008258.1 997092 998012 D Code: NU; COG: COG3539; hypothetical protein 997092..998012 Shigella flexneri 5 str. 8401 4208751 YP_688478.1 CDS SFV_0951 NC_008258.1 998110 998652 D Code: NU; COG: COG3539; fimbrial-like protein 998110..998652 Shigella flexneri 5 str. 8401 4208752 YP_688479.1 CDS SFV_0952 NC_008258.1 998660 999175 D Code: NU; COG: COG3539; fimbrial-like protein 998660..999175 Shigella flexneri 5 str. 8401 4208753 YP_688480.1 CDS ycbF NC_008258.1 999141 999878 D Code: NU; COG: COG3121; putativi pili assembly chaperone 999141..999878 Shigella flexneri 5 str. 8401 4208754 YP_688481.1 CDS pyrD NC_008258.1 999989 1000999 D 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 999989..1000999 Shigella flexneri 5 str. 8401 4208755 YP_688482.1 CDS ycbW NC_008258.1 1001137 1001715 D hypothetical protein 1001137..1001715 Shigella flexneri 5 str. 8401 4208756 YP_688483.1 CDS SFV_0956 NC_008258.1 1001712 1002821 R Code: R; COG: COG3217; hypothetical protein complement(1001712..1002821) Shigella flexneri 5 str. 8401 4208757 YP_688484.1 CDS rlmL NC_008258.1 1003065 1005173 D catalyzes the N2-methyl guanosine modification of the G2445 residue of 23S rRNA; 23S rRNA m(2)G2445 methyltransferase 1003065..1005173 Shigella flexneri 5 str. 8401 4208758 YP_688485.1 CDS uup NC_008258.1 1005185 1007092 D 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 component 1005185..1007092 Shigella flexneri 5 str. 8401 4208759 YP_688486.1 CDS pqiA NC_008258.1 1007222 1008475 D Code: S; COG: COG2995; paraquat-inducible protein A 1007222..1008475 Shigella flexneri 5 str. 8401 4208760 YP_688487.1 CDS pqiB NC_008258.1 1008480 1010120 D Code: R; COG: COG3008; paraquat-inducible protein B 1008480..1010120 Shigella flexneri 5 str. 8401 4208761 YP_688488.1 CDS ymbA NC_008258.1 1010117 1010680 D Code: S; COG: COG3009; hypothetical protein 1010117..1010680 Shigella flexneri 5 str. 8401 4208762 YP_688489.2 CDS fabA NC_008258.1 1011173 1011691 R catalyzes the dehydration of (3R)-3-hydroxydecanoyl-ACP to 2,3-decenoyl-ACP or 3,4-decenoyl-ACP; 3-hydroxydecanoyl-ACP dehydratase complement(1011173..1011691) Shigella flexneri 5 str. 8401 4208763 YP_688490.1 CDS SFV_0963 NC_008258.1 1011760 1013520 R Code: O; COG: COG1067; ATP-dependent protease complement(1011760..1013520) Shigella flexneri 5 str. 8401 4208764 YP_688491.1 CDS ycbG NC_008258.1 1013705 1014157 D Code: S; COG: COG3120; hypothetical protein 1013705..1014157 Shigella flexneri 5 str. 8401 4209233 YP_688492.1 CDS ompA NC_008258.1 1014233 1015279 R 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 OmpA complement(1014233..1015279) Shigella flexneri 5 str. 8401 4209234 YP_688493.1 CDS sulA NC_008258.1 1015635 1016144 R Code: D; COG: COG5404; SOS cell division inhibitor complement(1015635..1016144) Shigella flexneri 5 str. 8401 4209235 YP_688494.1 CDS SFV_0968 NC_008258.1 1016864 1017229 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 1016864..1017229 Shigella flexneri 5 str. 8401 4209237 YP_688495.1 CDS SFV_0969 NC_008258.1 1017253 1018092 D Code: L; COG: COG2801; IS2 ORF2 1017253..1018092 Shigella flexneri 5 str. 8401 4209238 YP_688496.1 CDS SFV_0970 NC_008258.1 1018291 1020453 R Code: S; COG: COG1289; hypothetical protein complement(1018291..1020453) Shigella flexneri 5 str. 8401 4209239 YP_688497.1 CDS yccF NC_008258.1 1020463 1020909 R Code: S; COG: COG3304; hypothetical protein complement(1020463..1020909) Shigella flexneri 5 str. 8401 4209240 YP_688498.1 CDS helD NC_008258.1 1020963 1023086 D catalyzes the ATP-dependent unwinding of duplex DNA in the 3' to 5' direction with respect to the bound single strand; DNA helicase IV 1020963..1023086 Shigella flexneri 5 str. 8401 4209241 YP_688499.1 CDS mgsA NC_008258.1 1023118 1023585 R catalyzes the formation of methylglyoxal from glycerone phosphate; methylglyoxal synthase complement(1023118..1023585) Shigella flexneri 5 str. 8401 4209242 YP_688500.1 CDS SFV_0974 NC_008258.1 1023672 1024334 R Code: S; COG: COG3110; hypothetical protein complement(1023672..1024334) Shigella flexneri 5 str. 8401 4209243 YP_688501.1 CDS SFV_0975 NC_008258.1 1024426 1024920 D Code: R; COG: COG1832; hypothetical protein 1024426..1024920 Shigella flexneri 5 str. 8401 4209244 YP_688502.1 CDS yccV NC_008258.1 1024965 1025333 R Code: S; COG: COG3785; heat shock protein HspQ complement(1024965..1025333) Shigella flexneri 5 str. 8401 4209245 YP_688503.1 CDS SFV_0977 NC_008258.1 1025340 1026515 R Code: R; COG: COG1092; oxidoreductase complement(1025340..1026515) Shigella flexneri 5 str. 8401 4209246 YP_688504.1 CDS yccK NC_008258.1 1026900 1027286 R transfers sulfur from TusBCD complex to MnmA; involved in thiouridation of U34 position of some tRNAs; sulfur transfer protein TusE complement(1026900..1027286) Shigella flexneri 5 str. 8401 4209247 YP_688505.1 CDS yccA NC_008258.1 1027320 1027979 R Code: R; COG: COG0670; hypothetical protein complement(1027320..1027979) Shigella flexneri 5 str. 8401 4209248 YP_688506.1 CDS hyaA NC_008258.1 1028729 1029817 D Code: C; COG: COG1740; hydrogenase-1 small subunit 1028729..1029817 Shigella flexneri 5 str. 8401 4209250 YP_688507.1 CDS hyaB NC_008258.1 1029814 1031607 D involved in hydrogen cycling during fermentative growth; hydrogenase 1 large subunit 1029814..1031607 Shigella flexneri 5 str. 8401 4209251 YP_688508.1 CDS hyaC NC_008258.1 1031626 1032333 D Code: C; COG: COG1969; hydrogenase 1 b-type cytochrome subunit 1031626..1032333 Shigella flexneri 5 str. 8401 4209367 YP_688509.1 CDS hyaD NC_008258.1 1032330 1032917 D HyaD; endopeptidase involved in the cleavage of the C-terminus end of HyaB (the large subunit of hydrogenase 1); hydrogenase 1 maturation protease 1032330..1032917 Shigella flexneri 5 str. 8401 4209368 YP_688510.1 CDS hyaE NC_008258.1 1032914 1033312 D involved in processing hydrogenases HyaA and HyaB; hydrogenase-1 operon protein HyaE 1032914..1033312 Shigella flexneri 5 str. 8401 4209369 YP_688511.1 CDS hyaF NC_008258.1 1033309 1034166 D nickel incorporation into hydrogenase-1 proteins 1033309..1034166 Shigella flexneri 5 str. 8401 4209370 YP_688512.1 CDS appC NC_008258.1 1034300 1035844 D Code: C; COG: COG1271; third cytochrome oxidase subunit I 1034300..1035844 Shigella flexneri 5 str. 8401 4209371 YP_688513.1 CDS appB NC_008258.1 1035856 1036992 D Code: C; COG: COG1294; third cytochrome oxidase subunit II 1035856..1036992 Shigella flexneri 5 str. 8401 4209372 YP_688514.1 CDS appA NC_008258.1 1037176 1038474 D phosphoanhydride phosphorylase 1037176..1038474 Shigella flexneri 5 str. 8401 4209373 YP_688515.1 CDS yccC NC_008258.1 1038589 1040769 R Code: M; COG: COG3206; cryptic autophosphorylating protein tyrosine kinase Etk complement(1038589..1040769) Shigella flexneri 5 str. 8401 4209374 YP_688516.1 CDS etp NC_008258.1 1040789 1041247 R Etk and Etp are a tyrosine kinase-tyrosine phosphatase pair, etp dephosphorylates etk; phosphotyrosine-protein phosphatase complement(1040789..1041247) Shigella flexneri 5 str. 8401 4209375 YP_688517.1 CDS yccZ NC_008258.1 1041223 1042383 R Code: M; COG: COG1596; function in exopolysaccharide production complement(1041223..1042383) Shigella flexneri 5 str. 8401 4209376 YP_688518.1 CDS ymcA NC_008258.1 1042408 1044504 R hypothetical protein complement(1042408..1044504) Shigella flexneri 5 str. 8401 4209377 YP_688519.1 CDS ymcB NC_008258.1 1044504 1045250 R hypothetical protein complement(1044504..1045250) Shigella flexneri 5 str. 8401 4209378 YP_688520.1 CDS ymcC NC_008258.1 1045247 1045891 R regulator complement(1045247..1045891) Shigella flexneri 5 str. 8401 4209379 YP_688521.1 CDS ymcD NC_008258.1 1045998 1046321 R hypothetical protein complement(1045998..1046321) Shigella flexneri 5 str. 8401 4209380 YP_688522.1 CDS cspH NC_008258.1 1046745 1046957 R Code: K; COG: COG1278; cold shock-like protein complement(1046745..1046957) Shigella flexneri 5 str. 8401 4209381 YP_688523.1 CDS SFV_0998 NC_008258.1 1047198 1047431 R IS1 encoded protein complement(1047198..1047431) Shigella flexneri 5 str. 8401 4209382 YP_688524.1 CDS insB NC_008258.1 1047506 1048009 D Code: L; COG: COG1662; IS1 ORF2 1047506..1048009 Shigella flexneri 5 str. 8401 4209383 YP_688525.1 CDS cspG NC_008258.1 1048031 1048231 D Code: K; COG: COG1278; cold shock protein CspG 1048031..1048231 Shigella flexneri 5 str. 8401 4209384 YP_688526.1 CDS gnsA NC_008258.1 1048625 1048798 D GnsA protein 1048625..1048798 Shigella flexneri 5 str. 8401 4209385 YP_688527.1 CDS yccM NC_008258.1 1048847 1049920 R Code: C; COG: COG0348; hypothetical protein complement(1048847..1049920) Shigella flexneri 5 str. 8401 4208894 YP_688528.1 CDS torS NC_008258.1 1050022 1052472 R sensor protein torS complement(1050022..1052472) Shigella flexneri 5 str. 8401 4208896 YP_688529.1 CDS torT NC_008258.1 1052471 1053499 D periplasmic sensory protein associated with the TorRS two-component regulatory system; TMAO reductase system periplasmic protein TorT 1052471..1053499 Shigella flexneri 5 str. 8401 4208895 YP_688530.1 CDS torR NC_008258.1 1053472 1054164 R response regulator in two-component regulatory system with TorS; involved in regulation of trimethylamine N-oxide reductase genes; DNA-binding transcriptional regulator TorR complement(1053472..1054164) Shigella flexneri 5 str. 8401 4208897 YP_688531.1 CDS torC NC_008258.1 1054251 1055423 D Code: C; COG: COG3005; trimethylamine N-oxide reductase, cytochrome c-type subunit 1054251..1055423 Shigella flexneri 5 str. 8401 4208898 YP_688532.1 CDS torA NC_008258.1 1055423 1057969 D Code: C; COG: COG0243; trimethylamine N-oxide reductase subunit 1055423..1057969 Shigella flexneri 5 str. 8401 4208899 YP_688533.1 CDS insB NC_008258.1 1058172 1058675 R Code: L; COG: COG1662; IS1 ORF2 complement(1058172..1058675) Shigella flexneri 5 str. 8401 4208901 YP_688534.1 CDS SFV_1010 NC_008258.1 1058750 1058935 D IS1 encoded protein 1058750..1058935 Shigella flexneri 5 str. 8401 4208902 YP_688535.1 CDS yccD NC_008258.1 1059435 1059740 R 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 complement(1059435..1059740) Shigella flexneri 5 str. 8401 4208903 YP_688536.1 CDS cbpA NC_008258.1 1059740 1060660 R 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 complement(1059740..1060660) Shigella flexneri 5 str. 8401 4208904 YP_688537.1 CDS yccE NC_008258.1 1060921 1062177 D hypothetical protein 1060921..1062177 Shigella flexneri 5 str. 8401 4208905 YP_688538.1 CDS agp NC_008258.1 1062470 1063711 D glucose-1-phosphatase/inositol phosphatase 1062470..1063711 Shigella flexneri 5 str. 8401 4208906 YP_688539.1 CDS yccJ NC_008258.1 1063749 1063976 R hypothetical protein complement(1063749..1063976) Shigella flexneri 5 str. 8401 4208907 YP_688540.1 CDS wrbA NC_008258.1 1063997 1064593 R stationary phase that binds TrpR repressor; TrpR binding protein WrbA complement(1063997..1064593) Shigella flexneri 5 str. 8401 4208908 YP_688541.1 CDS ycdF NC_008258.1 1064803 1065033 D hypothetical protein 1064803..1065033 Shigella flexneri 5 str. 8401 4208909 YP_688542.1 CDS ycdG NC_008258.1 1065155 1066483 R Code: F; COG: COG2233; transport protein complement(1065155..1066483) Shigella flexneri 5 str. 8401 4208910 YP_688543.1 CDS SFV_1019 NC_008258.1 1066504 1066998 R Code: R; COG: COG1853; hypothetical protein complement(1066504..1066998) Shigella flexneri 5 str. 8401 4208911 YP_688544.1 CDS SFV_1020 NC_008258.1 1067009 1067599 R Code: C; COG: COG0778; hypothetical protein complement(1067009..1067599) Shigella flexneri 5 str. 8401 4208912 YP_688545.1 CDS SFV_1021 NC_008258.1 1067609 1068409 R Code: R; COG: COG0596; acetyltransferase complement(1067609..1068409) Shigella flexneri 5 str. 8401 4208913 YP_688546.1 CDS SFV_1022 NC_008258.1 1068417 1068803 R Code: J; COG: COG0251; hypothetical protein complement(1068417..1068803) Shigella flexneri 5 str. 8401 4209007 YP_688547.1 CDS SFV_1023 NC_008258.1 1068815 1069510 R Code: Q; COG: COG1335; synthetase complement(1068815..1069510) Shigella flexneri 5 str. 8401 4209008 YP_688548.1 CDS SFV_1024 NC_008258.1 1069507 1070601 R Code: C; COG: COG2141; hypothetical protein complement(1069507..1070601) Shigella flexneri 5 str. 8401 4209009 YP_688549.1 CDS ycdC NC_008258.1 1070886 1071524 D Code: K; COG: COG1309; tet operon regulator 1070886..1071524 Shigella flexneri 5 str. 8401 4209010 YP_688550.1 CDS SFV_1026 NC_008258.1 1071818 1072891 R IS91 orf complement(1071818..1072891) Shigella flexneri 5 str. 8401 4209011 YP_688551.1 CDS SFV_1027 NC_008258.1 1073005 1073370 R IS91 ORF2 complement(1073005..1073370) Shigella flexneri 5 str. 8401 4209012 YP_688552.1 CDS SFV_1028 NC_008258.1 1073540 1074133 D Code: P; COG: COG0672; cytochrome 1073540..1074133 Shigella flexneri 5 str. 8401 4209013 YP_688553.1 CDS ycdO NC_008258.1 1074191 1075318 D Code: P; COG: COG2822; hypothetical protein 1074191..1075318 Shigella flexneri 5 str. 8401 4209014 YP_688554.1 CDS ycdB NC_008258.1 1075324 1076589 D Code: P; COG: COG2837; hypothetical protein 1075324..1076589 Shigella flexneri 5 str. 8401 4209015 YP_688555.1 CDS pgaD NC_008258.1 1078035 1078448 R in Yersinia this gene is involved in biofilm formation and hemin adsorption; in Escherichia coli it is involved in PGA biosynthesis and export; PGA biosynthesis protein complement(1078035..1078448) Shigella flexneri 5 str. 8401 4209017 YP_688556.1 CDS ycdQ NC_008258.1 1078450 1079775 R predicted polysaccharide polymerase involved in biofilm formation; required for the synthesis of the beta-1,6-N-acetylglucosamine polysaccharide; PgaC; in Yersinia the HmsR protein is an inner membrane protein; N-glycosyltransferase complement(1078450..1079775) Shigella flexneri 5 str. 8401 4209018 YP_688557.1 CDS insB NC_008258.1 1081027 1081530 R Code: L; COG: COG1662; IS1 ORF2 complement(1081027..1081530) Shigella flexneri 5 str. 8401 4209019 YP_688558.1 CDS SFV_1037 NC_008258.1 1086594 1086932 D hypothetical protein 1086594..1086932 Shigella flexneri 5 str. 8401 4209022 YP_688559.1 CDS SFV_1038 NC_008258.1 1087030 1088481 D rtn-like protein 1087030..1088481 Shigella flexneri 5 str. 8401 4209023 YP_688560.1 CDS SFV_1039 NC_008258.1 1088892 1089758 R Code: L; COG: COG2801; IS3 ORF2 complement(1088892..1089758) Shigella flexneri 5 str. 8401 4209024 YP_688561.1 CDS SFV_1040 NC_008258.1 1089755 1090054 R Code: L; COG: COG2963; IS3 ORF1 complement(1089755..1090054) Shigella flexneri 5 str. 8401 4209025 YP_688562.1 CDS SFV_1041 NC_008258.1 1090157 1090537 D hypothetical protein 1090157..1090537 Shigella flexneri 5 str. 8401 4207265 YP_688563.1 CDS ycdU NC_008258.1 1090646 1091632 D hypothetical protein 1090646..1091632 Shigella flexneri 5 str. 8401 4207266 YP_688564.1 CDS ycdX NC_008258.1 1093140 1093877 D Code: ER; COG: COG1387; hydrolase 1093140..1093877 Shigella flexneri 5 str. 8401 4207269 YP_688565.1 CDS ycdY NC_008258.1 1093901 1094455 D Code: R; COG: COG3381; oxidoreductase component 1093901..1094455 Shigella flexneri 5 str. 8401 4207270 YP_688566.1 CDS ycdZ NC_008258.1 1094509 1095048 D hypothetical protein 1094509..1095048 Shigella flexneri 5 str. 8401 4207271 YP_688567.1 CDS csgF NC_008258.1 1095914 1096330 R nucleator protein that participates in the polymerization of curlin (CsgA) subunits into curli (extracellular fibers from Escherichia and Salmonella spp. that are involved in the colonization of inert surfaces and biofilm formation); part of the curli secretion and assembly protein complex; curli assembly protein CsgF complement(1095914..1096330) Shigella flexneri 5 str. 8401 4207273 YP_688568.1 CDS csgE NC_008258.1 1096355 1096744 R chaperone-like protein that participates in the polymerization of curlin (CsgA) subunits into curli (extracellular fibers from Escherichia and Salmonella spp. that are involved in the colonization of inert surfaces and biofilm formation); part of the curli secretion and assembly protein complex; curli assembly protein CsgE complement(1096355..1096744) Shigella flexneri 5 str. 8401 4207274 YP_688569.1 CDS csgD NC_008258.1 1096749 1097399 R activates the csgBA and csgDEFG operons involved in biofilm formation; DNA-binding transcriptional regulator CsgD complement(1096749..1097399) Shigella flexneri 5 str. 8401 4207275 YP_688570.1 CDS csgB NC_008258.1 1098153 1098608 D CsgB; functions as a nucleator in the assembly of curli (coiled surface structures) on the cell surface; curlin minor subunit 1098153..1098608 Shigella flexneri 5 str. 8401 4207276 YP_688571.1 CDS SFV_1054 NC_008258.1 1098822 1099124 D Code: L; COG: COG2963; IS600 ORF1 1098822..1099124 Shigella flexneri 5 str. 8401 4207278 YP_688572.1 CDS SFV_1055 NC_008258.1 1099265 1099903 D Code: L; COG: COG2801; IS600 ORF2 1099265..1099903 Shigella flexneri 5 str. 8401 4207279 YP_688573.1 CDS SFV_1056 NC_008258.1 1100761 1101072 D hypothetical protein 1100761..1101072 Shigella flexneri 5 str. 8401 4207280 YP_688574.1 CDS SFV_1057 NC_008258.1 1101167 1101700 D Code: R; COG: COG2110; hypothetical protein 1101167..1101700 Shigella flexneri 5 str. 8401 4207281 YP_688575.1 CDS mdoC NC_008258.1 1103127 1104284 R required for the transfer of succinyl residues to the glucan backbone; glucans biosynthesis protein complement(1103127..1104284) Shigella flexneri 5 str. 8401 4207283 YP_688576.1 CDS mdoG NC_008258.1 1104687 1106213 D involved in the biosynthesis of osmoregulated periplasmic glucans; required for the assembly of the polyglucose structure of glucan; glucan biosynthesis protein G 1104687..1106213 Shigella flexneri 5 str. 8401 4209386 YP_688577.1 CDS mdoH NC_008258.1 1106206 1108749 D necessary for biosynthesis of osmoregulated periplasmic glucans possibly involved in the transfer to the periplasmic space; glucosyltransferase MdoH 1106206..1108749 Shigella flexneri 5 str. 8401 4209387 YP_688578.1 CDS SFV_1062 NC_008258.1 1109165 1110238 R IS91 orf complement(1109165..1110238) Shigella flexneri 5 str. 8401 4209388 YP_688579.1 CDS SFV_1063 NC_008258.1 1110352 1110717 R IS91 ORF2 complement(1110352..1110717) Shigella flexneri 5 str. 8401 4209389 YP_688580.1 CDS SFV_1064 NC_008258.1 1110742 1112376 D hypothetical protein 1110742..1112376 Shigella flexneri 5 str. 8401 4209390 YP_688581.1 CDS SFV_1065 NC_008258.1 1112480 1113127 R Code: L; COG: COG2801; IS629 ORF2 complement(1112480..1113127) Shigella flexneri 5 str. 8401 4209391 YP_688582.1 CDS SFV_1066 NC_008258.1 1113363 1113689 R Code: L; COG: COG2963; IS629 ORF1 complement(1113363..1113689) Shigella flexneri 5 str. 8401 4209392 YP_688583.1 CDS SFV_1067 NC_008258.1 1114121 1114423 D Code: L; COG: COG2963; IS911 ORF1 1114121..1114423 Shigella flexneri 5 str. 8401 4209393 YP_688584.1 CDS SFV_1068 NC_008258.1 1114724 1115290 D IS911 ORF2 1114724..1115290 Shigella flexneri 5 str. 8401 4209394 YP_688585.1 CDS SFV_1069 NC_008258.1 1115863 1116228 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 1115863..1116228 Shigella flexneri 5 str. 8401 4209395 YP_688586.2 CDS SFV_1070 NC_008258.1 1116186 1117091 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 1116186..1117091 Shigella flexneri 5 str. 8401 4209396 YP_688587.1 CDS SFV_1071 NC_008258.1 1117487 1117813 D Code: L; COG: COG2963; IS629 ORF1 1117487..1117813 Shigella flexneri 5 str. 8401 4209397 YP_688588.1 CDS SFV_1072 NC_008258.1 1118049 1118528 D IS629 ORF2 1118049..1118528 Shigella flexneri 5 str. 8401 4209398 YP_688589.1 CDS SFV_1073 NC_008258.1 1118309 1118695 D IS629 ORF2 1118309..1118695 Shigella flexneri 5 str. 8401 4209399 YP_688590.1 CDS SFV_1074 NC_008258.1 1118983 1119285 D Code: L; COG: COG2963; IS600 ORF1 1118983..1119285 Shigella flexneri 5 str. 8401 4209400 YP_688591.1 CDS SFV_1075 NC_008258.1 1119426 1120139 D Code: L; COG: COG2801; IS600 ORF2 1119426..1120139 Shigella flexneri 5 str. 8401 4209401 YP_688592.1 CDS SFV_1076 NC_008258.1 1120164 1121102 R Code: L; COG: COG1961; hypothetical protein complement(1120164..1121102) Shigella flexneri 5 str. 8401 4209402 YP_688593.1 CDS htrB NC_008258.1 1121489 1122472 R Acylates the intermediate (KDO)2-lipid IVA to form (KDO)2-(lauroyl)-lipid IVA; lipid A biosynthesis lauroyl acyltransferase complement(1121489..1122472) Shigella flexneri 5 str. 8401 4209403 YP_688594.1 CDS yceA NC_008258.1 1122634 1123686 D Code: R; COG: COG1054; hypothetical protein 1122634..1123686 Shigella flexneri 5 str. 8401 4209404 YP_688595.1 CDS yceI NC_008258.1 1123728 1124303 R Code: S; COG: COG2353; hypothetical protein complement(1123728..1124303) Shigella flexneri 5 str. 8401 4209561 YP_688596.1 CDS SFV_1080 NC_008258.1 1124307 1124948 R Code: C; COG: COG3038; cytochrome complement(1124307..1124948) Shigella flexneri 5 str. 8401 4209562 YP_688597.1 CDS yceO NC_008258.1 1125134 1125274 R hypothetical protein complement(1125134..1125274) Shigella flexneri 5 str. 8401 4209563 YP_688598.1 CDS solA NC_008258.1 1125295 1126413 R 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 complement(1125295..1126413) Shigella flexneri 5 str. 8401 4209564 YP_688599.2 CDS dinI NC_008258.1 1127072 1127317 R DNA damage-inducible protein I complement(1127072..1127317) Shigella flexneri 5 str. 8401 4209565 YP_688600.1 CDS pyrC NC_008258.1 1127391 1128437 R catalyzes the formation of N-carbamoyl-L-aspartate from (S)-dihydroorotate in pyrimidine biosynthesis; dihydroorotase complement(1127391..1128437) Shigella flexneri 5 str. 8401 4209566 YP_688601.1 CDS yceB NC_008258.1 1128543 1129160 R hypothetical protein complement(1128543..1129160) Shigella flexneri 5 str. 8401 4209567 YP_688602.1 CDS grxB NC_008258.1 1129237 1129884 R cofactor involved in the reduction of disulfides; glutaredoxin 2 complement(1129237..1129884) Shigella flexneri 5 str. 8401 4209568 YP_688603.1 CDS yceL NC_008258.1 1129948 1131156 R Confers resistance to norfloxacin and enoxacin; multidrug resistance protein MdtH complement(1129948..1131156) Shigella flexneri 5 str. 8401 4209569 YP_688604.1 CDS rimJ NC_008258.1 1131392 1131976 D Code: J; COG: COG1670; ribosomal-protein-S5-alanine N-acetyltransferase 1131392..1131976 Shigella flexneri 5 str. 8401 4209570 YP_688605.1 CDS yceH NC_008258.1 1131987 1132634 D Code: S; COG: COG3132; hypothetical protein 1131987..1132634 Shigella flexneri 5 str. 8401 4209571 YP_688606.1 CDS mviM NC_008258.1 1132636 1133502 D Code: R; COG: COG0673; virulence factor 1132636..1133502 Shigella flexneri 5 str. 8401 4209572 YP_688607.1 CDS mviN NC_008258.1 1133669 1135204 D Code: R; COG: COG0728; virulence factor 1133669..1135204 Shigella flexneri 5 str. 8401 4209573 YP_688608.1 CDS flgN NC_008258.1 1135244 1135660 R Code: NUO; COG: COG3418; flagellar synthesis protein FlgN complement(1135244..1135660) Shigella flexneri 5 str. 8401 4209574 YP_688609.1 CDS flgM NC_008258.1 1135665 1135958 R regulates the flagellar specific sigma28 transcription factor; anti-sigma28 factor FlgM complement(1135665..1135958) Shigella flexneri 5 str. 8401 4209575 YP_688610.1 CDS flgA NC_008258.1 1136034 1136693 R required for the assembly of the flagellar basal body P-ring; flagellar basal body P-ring biosynthesis protein FlgA complement(1136034..1136693) Shigella flexneri 5 str. 8401 4209576 YP_688611.1 CDS flgB NC_008258.1 1136848 1137264 D with FlgF and C makes up the proximal portion of the flagellar basal body rod; Vibrio parahaemolyticus protein is associated with the polar flagella; flagellar basal-body rod protein FlgB 1136848..1137264 Shigella flexneri 5 str. 8401 4209577 YP_688612.1 CDS flgD NC_008258.1 1137683 1138378 D 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 1137683..1138378 Shigella flexneri 5 str. 8401 4209579 YP_688613.1 CDS flgE NC_008258.1 1138403 1139611 D the hook connects flagellar basal body to the flagellar filament; flagellar hook protein FlgE 1138403..1139611 Shigella flexneri 5 str. 8401 4209580 YP_688614.1 CDS flgF NC_008258.1 1139631 1140386 D FlgF, with FlgB and C, makes up the proximal portion of the flagellar basal body rod; flagellar basal body rod protein FlgF 1139631..1140386 Shigella flexneri 5 str. 8401 4207997 YP_688615.1 CDS flgG NC_008258.1 1140524 1141306 D makes up the distal portion of the flagellar basal body rod; flagellar basal body rod protein FlgG 1140524..1141306 Shigella flexneri 5 str. 8401 4207998 YP_688616.1 CDS flgH NC_008258.1 1141350 1142057 D 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 1141350..1142057 Shigella flexneri 5 str. 8401 4207999 YP_688617.1 CDS flgI NC_008258.1 1142069 1143166 D 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 biosynthesis protein FlgA 1142069..1143166 Shigella flexneri 5 str. 8401 4208000 YP_688618.2 CDS flgJ NC_008258.1 1143166 1144107 D Flagellum-specific muramidase which hydrolyzes the peptidoglycan layer to assemble the rod structure in the periplasmic space; flagellar rod assembly protein/muramidase FlgJ 1143166..1144107 Shigella flexneri 5 str. 8401 4208001 YP_688619.1 CDS flgL NC_008258.1 1145827 1146780 D 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 1145827..1146780 Shigella flexneri 5 str. 8401 4208003 YP_688620.1 CDS rne NC_008258.1 1146976 1150161 R 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 complement(1146976..1150161) Shigella flexneri 5 str. 8401 4208004 YP_688621.1 CDS yceC NC_008258.1 1150734 1151693 D catalyzes the transformation of uracil to pseudouracil at nucleotides U955, U2504, and U2580 in 23S rRNA; 23S rRNA pseudouridylate synthase C 1150734..1151693 Shigella flexneri 5 str. 8401 4208005 YP_688622.1 CDS yceF NC_008258.1 1151805 1152428 R Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell; Maf-like protein complement(1151805..1152428) Shigella flexneri 5 str. 8401 4208006 YP_688623.1 CDS yceD NC_008258.1 1152588 1153109 D Code: R; COG: COG1399; hypothetical protein 1152588..1153109 Shigella flexneri 5 str. 8401 4208007 YP_688624.1 CDS plsX NC_008258.1 1153469 1154485 D 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 1153469..1154485 Shigella flexneri 5 str. 8401 4208008 YP_688625.1 CDS fabH NC_008258.1 1154553 1155506 D 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 1154553..1155506 Shigella flexneri 5 str. 8401 4208009 YP_688626.1 CDS fabD NC_008258.1 1155522 1156451 D Code: I; COG: COG0331; ACP S-malonyltransferase 1155522..1156451 Shigella flexneri 5 str. 8401 4208010 YP_688627.1 CDS fabG NC_008258.1 1156464 1157198 D catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-ACP reductase 1156464..1157198 Shigella flexneri 5 str. 8401 4208011 YP_688628.1 CDS acpP NC_008258.1 1157409 1157645 D carries the fatty acid chain in fatty acid biosynthesis; acyl carrier protein 1157409..1157645 Shigella flexneri 5 str. 8401 4208012 YP_688629.2 CDS fabF NC_008258.1 1157731 1158972 D 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-ACP synthase 1157731..1158972 Shigella flexneri 5 str. 8401 4208013 YP_688630.1 CDS pabC NC_008258.1 1159092 1159901 D catalyzes the formation of 4-aminobenzoate and pyruvate from 4-amino-4-deoxychorismate; 4-amino-4-deoxychorismate lyase 1159092..1159901 Shigella flexneri 5 str. 8401 4208014 YP_688631.1 CDS yceG NC_008258.1 1159904 1160926 D Code: R; COG: COG1559; hypothetical protein 1159904..1160926 Shigella flexneri 5 str. 8401 4208015 YP_688632.1 CDS tmk NC_008258.1 1160916 1161557 D catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to thymidine monophosphate (dTMP) to form thymidine diphosphate (dTDP); thymidylate kinase 1160916..1161557 Shigella flexneri 5 str. 8401 4208224 YP_688633.1 CDS holB NC_008258.1 1161554 1162558 D 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' 1161554..1162558 Shigella flexneri 5 str. 8401 4208225 YP_688634.1 CDS ycfH NC_008258.1 1162569 1163366 D Code: L; COG: COG0084; metallodependent hydrolase 1162569..1163366 Shigella flexneri 5 str. 8401 4208226 YP_688635.1 CDS ptsG NC_008258.1 1163661 1165094 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 glucose-specific transporter subunits IIBC 1163661..1165094 Shigella flexneri 5 str. 8401 4208227 YP_688636.1 CDS fhuE NC_008258.1 1165154 1167343 R Code: P; COG: COG4773; ferric-rhodotorulic acid outer membrane transporter complement(1165154..1167343) Shigella flexneri 5 str. 8401 4208228 YP_688637.1 CDS ycfF NC_008258.1 1167682 1168041 D Code: FGR; COG: COG0537; purine nucleoside phosphoramidase 1167682..1168041 Shigella flexneri 5 str. 8401 4208229 YP_688638.1 CDS ycfL NC_008258.1 1168044 1168421 D Code: R; COG: COG5633; hypothetical protein 1168044..1168421 Shigella flexneri 5 str. 8401 4208230 YP_688639.1 CDS ycfM NC_008258.1 1168436 1169017 D Code: R; COG: COG3417; hypothetical protein 1168436..1169017 Shigella flexneri 5 str. 8401 4208231 YP_688640.1 CDS thiK NC_008258.1 1169057 1169881 D catalyzes the phosphorylation of thiamine to thiamine phosphate; thiamine kinase 1169057..1169881 Shigella flexneri 5 str. 8401 4208232 YP_688641.1 CDS ycfO NC_008258.1 1169904 1170917 D hydrolyzes the terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides; beta-hexosaminidase 1169904..1170917 Shigella flexneri 5 str. 8401 4208233 YP_688642.1 CDS ycfP NC_008258.1 1170940 1171482 D Code: R; COG: COG3150; hypothetical protein 1170940..1171482 Shigella flexneri 5 str. 8401 4208234 YP_688643.1 CDS ndh NC_008258.1 1171914 1173194 D Code: C; COG: COG1252; respiratory NADH dehydrogenase 1171914..1173194 Shigella flexneri 5 str. 8401 4208235 YP_688644.1 CDS ycfJ NC_008258.1 1173433 1173960 D Code: S; COG: COG3134; hypothetical protein 1173433..1173960 Shigella flexneri 5 str. 8401 4208236 YP_688645.1 CDS ycfQ NC_008258.1 1174022 1174717 R Code: K; COG: COG1309; hypothetical protein complement(1174022..1174717) Shigella flexneri 5 str. 8401 4208237 YP_688646.1 CDS ycfR NC_008258.1 1174939 1175151 D hypothetical protein 1174939..1175151 Shigella flexneri 5 str. 8401 4208238 YP_688647.1 CDS ycfS NC_008258.1 1175234 1176199 R Code: S; COG: COG1376; hypothetical protein complement(1175234..1176199) Shigella flexneri 5 str. 8401 4208239 YP_688648.1 CDS mfd NC_008258.1 1176339 1179848 R Code: LK; COG: COG1197; transcription-repair coupling factor complement(1176339..1179848) Shigella flexneri 5 str. 8401 4208240 YP_688649.1 CDS ycfT NC_008258.1 1179913 1180986 R Code: S; COG: COG4763; hypothetical protein complement(1179913..1180986) Shigella flexneri 5 str. 8401 4208241 YP_688650.1 CDS ycfU NC_008258.1 1181197 1182447 D 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 1181197..1182447 Shigella flexneri 5 str. 8401 4208242 YP_688651.1 CDS lolD NC_008258.1 1182455 1183141 D 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 1182455..1183141 Shigella flexneri 5 str. 8401 4208243 YP_688652.1 CDS ycfW NC_008258.1 1183141 1184385 D 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 1183141..1184385 Shigella flexneri 5 str. 8401 4208952 YP_688653.1 CDS ycfX NC_008258.1 1184414 1185325 D catalyzes the formation of N-acetyl-D-glucosamine-6-phosphate from N-acetyl-D-glucosamine; N-acetyl-D-glucosamine kinase 1184414..1185325 Shigella flexneri 5 str. 8401 4208953 YP_688654.1 CDS cobB NC_008258.1 1185341 1186162 D Modulates the activities of several enzymes which are inactive in their acetylated form; NAD-dependent deacetylase 1185341..1186162 Shigella flexneri 5 str. 8401 4208954 YP_688655.1 CDS potD NC_008258.1 1186318 1187364 R 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 periplasmic substrate-binding protein complement(1186318..1187364) Shigella flexneri 5 str. 8401 4208955 YP_688656.1 CDS potC NC_008258.1 1187361 1188155 R 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 complement(1187361..1188155) Shigella flexneri 5 str. 8401 4208956 YP_688657.1 CDS potB NC_008258.1 1188152 1189009 R 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 complement(1188152..1189009) Shigella flexneri 5 str. 8401 4208957 YP_688658.1 CDS potA NC_008258.1 1188993 1190129 R functions together with PotBCD (A2BCD) in ATP-dependent polyamine transport; PotA is the membrane-associated ATPase; putrescine/spermidine ABC transporter ATPase complement(1188993..1190129) Shigella flexneri 5 str. 8401 4208958 YP_688659.1 CDS pepT NC_008258.1 1190379 1191605 D catalyzes the release of the N-terminal amino acid from a tripeptide; peptidase T 1190379..1191605 Shigella flexneri 5 str. 8401 4208959 YP_688660.1 CDS ycfD NC_008258.1 1191654 1192784 R Code: S; COG: COG2850; hypothetical protein complement(1191654..1192784) Shigella flexneri 5 str. 8401 4208960 YP_688661.1 CDS SFV_1147 NC_008258.1 1193003 1194253 D Code: L; COG: COG0582; integrase of prophage 1193003..1194253 Shigella flexneri 5 str. 8401 4208961 YP_688662.1 CDS SFV_1148 NC_008258.1 1194874 1195620 D hypothetical protein 1194874..1195620 Shigella flexneri 5 str. 8401 4208962 YP_688663.1 CDS SFV_1149 NC_008258.1 1196494 1196793 D hypothetical protein 1196494..1196793 Shigella flexneri 5 str. 8401 4208963 YP_688664.1 CDS SFV_1150 NC_008258.1 1196790 1198538 D Code: R; COG: COG3378; bacteriophage P4 DNA primase 1196790..1198538 Shigella flexneri 5 str. 8401 4208964 YP_688665.1 CDS SFV_1151 NC_008258.1 1199102 1199407 D hypothetical protein 1199102..1199407 Shigella flexneri 5 str. 8401 4208965 YP_688666.1 CDS SFV_1152 NC_008258.1 1199417 1199578 D hypothetical protein 1199417..1199578 Shigella flexneri 5 str. 8401 4208966 YP_688667.1 CDS SFV_1153 NC_008258.1 1199642 1199944 D hypothetical protein 1199642..1199944 Shigella flexneri 5 str. 8401 4208967 YP_688668.1 CDS insB NC_008258.1 1200272 1200775 R Code: L; COG: COG1662; IS1 ORF2 complement(1200272..1200775) Shigella flexneri 5 str. 8401 4208968 YP_688669.1 CDS SFV_1155 NC_008258.1 1200850 1201065 D IS1 encoded protein 1200850..1201065 Shigella flexneri 5 str. 8401 4208969 YP_688670.1 CDS SFV_1157 NC_008258.1 1202234 1202791 D Code: R; COG: COG3740; head maturation protease of prophage CP-933C 1202234..1202791 Shigella flexneri 5 str. 8401 4209099 YP_688671.1 CDS SFV_1158 NC_008258.1 1202793 1204004 D Code: S; COG: COG4695; head portal protein 1202793..1204004 Shigella flexneri 5 str. 8401 4209100 YP_688672.1 CDS SFV_1159 NC_008258.1 1204336 1204632 D hypothetical protein 1204336..1204632 Shigella flexneri 5 str. 8401 4209101 YP_688673.1 CDS SFV_1160 NC_008258.1 1205309 1205620 D Code: L; COG: COG3747; hypothetical protein 1205309..1205620 Shigella flexneri 5 str. 8401 4209102 YP_688674.1 CDS SFV_1161 NC_008258.1 1205604 1207265 D Code: R; COG: COG4626; terminase of prophage CP-933C 1205604..1207265 Shigella flexneri 5 str. 8401 4209103 YP_688675.1 CDS SFV_1162 NC_008258.1 1207279 1207560 D hypothetical protein 1207279..1207560 Shigella flexneri 5 str. 8401 4209104 YP_688676.1 CDS SFV_1163 NC_008258.1 1207867 1208043 R hypothetical protein complement(1207867..1208043) Shigella flexneri 5 str. 8401 4209105 YP_688677.1 CDS phoQ NC_008258.1 1208357 1209817 R Code: T; COG: COG0642; sensor protein PhoQ complement(1208357..1209817) Shigella flexneri 5 str. 8401 4209106 YP_688678.1 CDS phoP NC_008258.1 1209817 1210488 R response regulator in two-component regulatory system with PhoQ; involved in magnesium starvation and stress; DNA-binding transcriptional regulator PhoP complement(1209817..1210488) Shigella flexneri 5 str. 8401 4209107 YP_688679.1 CDS purB NC_008258.1 1210657 1212027 R Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide; adenylosuccinate lyase complement(1210657..1212027) Shigella flexneri 5 str. 8401 4209108 YP_688680.1 CDS ycfC NC_008258.1 1212031 1212672 R 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 complement(1212031..1212672) Shigella flexneri 5 str. 8401 4209109 YP_688681.1 CDS mnmA NC_008258.1 1212708 1213814 R catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs; tRNA-specific 2-thiouridylase MnmA complement(1212708..1213814) Shigella flexneri 5 str. 8401 4209110 YP_688682.1 CDS SFV_1169 NC_008258.1 1213868 1214329 R Code: LR; COG: COG0494; phosphohydrolase complement(1213868..1214329) Shigella flexneri 5 str. 8401 4209111 YP_688683.1 CDS ymfC NC_008258.1 1214339 1214992 R catalyzes the formation of pseudouridine from uracil-2457 in 23S ribosomal RNA; 23S rRNA pseudouridine synthase E complement(1214339..1214992) Shigella flexneri 5 str. 8401 4209112 YP_688684.1 CDS icdA NC_008258.1 1215164 1216414 D Converts isocitrate to alpha ketoglutarate; isocitrate dehydrogenase 1215164..1216414 Shigella flexneri 5 str. 8401 4209113 YP_688685.1 CDS insB NC_008258.1 1216521 1217024 R Code: L; COG: COG1662; IS1 ORF2 complement(1216521..1217024) Shigella flexneri 5 str. 8401 4209114 YP_688686.1 CDS SFV_1173 NC_008258.1 1217099 1217332 D IS1 encoded protein 1217099..1217332 Shigella flexneri 5 str. 8401 4209115 YP_688687.1 CDS SFV_1174 NC_008258.1 1217756 1220029 D hypothetical protein 1217756..1220029 Shigella flexneri 5 str. 8401 4209116 YP_688688.1 CDS SFV_1175 NC_008258.1 1220086 1220415 R hypothetical protein complement(1220086..1220415) Shigella flexneri 5 str. 8401 4209117 YP_688689.1 CDS SFV_1176 NC_008258.1 1220425 1220769 R hypothetical protein complement(1220425..1220769) Shigella flexneri 5 str. 8401 4209118 YP_688690.1 CDS SFV_1177 NC_008258.1 1221279 1221689 D hypothetical protein 1221279..1221689 Shigella flexneri 5 str. 8401 4209405 YP_688691.1 CDS minE NC_008258.1 1222061 1222327 R 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 complement(1222061..1222327) Shigella flexneri 5 str. 8401 4209406 YP_688692.1 CDS minD NC_008258.1 1222331 1223143 R ATPase; with MinC inhibits cell division by blocking formation of the polar Z ring septums; cell division inhibitor MinD complement(1222331..1223143) Shigella flexneri 5 str. 8401 4209407 YP_688693.2 CDS minC NC_008258.1 1223167 1223862 R blocks the formation of polar Z-ring septums; septum formation inhibitor complement(1223167..1223862) Shigella flexneri 5 str. 8401 4209408 YP_688694.2 CDS SFV_1181 NC_008258.1 1224602 1225507 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(1224602..1225507) Shigella flexneri 5 str. 8401 4209409 YP_688695.1 CDS SFV_1182 NC_008258.1 1225465 1225830 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(1225465..1225830) Shigella flexneri 5 str. 8401 4209410 YP_688696.1 CDS SFV_1183 NC_008258.1 1226194 1226412 R hypothetical protein complement(1226194..1226412) Shigella flexneri 5 str. 8401 4209411 YP_688697.1 CDS SFV_1184 NC_008258.1 1226557 1226856 D Code: L; COG: COG2963; IS3 ORF1 1226557..1226856 Shigella flexneri 5 str. 8401 4209412 YP_688698.1 CDS SFV_1185 NC_008258.1 1226853 1227707 D Code: L; COG: COG2801; IS3 ORF2 1226853..1227707 Shigella flexneri 5 str. 8401 4209413 YP_688699.1 CDS ycgL NC_008258.1 1228065 1228391 D Code: S; COG: COG3100; hypothetical protein 1228065..1228391 Shigella flexneri 5 str. 8401 4209414 YP_688700.1 CDS SFV_1187 NC_008258.1 1228463 1229122 D Code: Q; COG: COG0179; hypothetical protein 1228463..1229122 Shigella flexneri 5 str. 8401 4209415 YP_688701.2 CDS ycgN NC_008258.1 1229214 1229660 D Code: S; COG: COG2983; hypothetical protein 1229214..1229660 Shigella flexneri 5 str. 8401 4209416 YP_688702.1 CDS umuD NC_008258.1 1231140 1231559 D binds with UmuC protein to form functional DNA pol V (UmuD'2UmuC); involved in translesion polymerization; DNA polymerase V subunit UmuD 1231140..1231559 Shigella flexneri 5 str. 8401 4209418 YP_688703.1 CDS umuC NC_008258.1 1231559 1232827 D binds processed UmuD protein to form functional DNA pol V (UmuD'2UmuC); involved in translesion polymerization; DNA polymerase V subunit UmuC 1231559..1232827 Shigella flexneri 5 str. 8401 4209419 YP_688704.1 CDS dsbB NC_008258.1 1232873 1233403 R disulfide oxidoreductase; integral membrane protein; required for perioplasmic disulfide bond formation; oxidizes DsbA protein; disulfide bond formation protein B complement(1232873..1233403) Shigella flexneri 5 str. 8401 4209420 YP_688705.1 CDS nhaB NC_008258.1 1233549 1235090 R involved in regulation of intracellular pH under alkaline conditions; sodium/proton antiporter complement(1233549..1235090) Shigella flexneri 5 str. 8401 4209421 YP_688706.1 CDS fadR NC_008258.1 1235287 1236030 D Multifunctional regulator of fatty acid metabolism; fatty acid metabolism regulator 1235287..1236030 Shigella flexneri 5 str. 8401 4209422 YP_688707.1 CDS ycgB NC_008258.1 1236082 1237614 R Code: S; COG: COG2719; SpoVR family protein complement(1236082..1237614) Shigella flexneri 5 str. 8401 4209423 YP_688708.1 CDS dadA NC_008258.1 1237944 1239242 D catalyzes the oxidative deamination of D-amino acids; D-amino acid dehydrogenase small subunit 1237944..1239242 Shigella flexneri 5 str. 8401 4209443 YP_688709.1 CDS dadX NC_008258.1 1239252 1240322 D catabolic enzyme, converts L-alanine to D-alanine which is then oxidized to pyruvate by dadA; alanine racemase 1239252..1240322 Shigella flexneri 5 str. 8401 4209444 YP_688710.1 CDS ipaH NC_008258.1 1240754 1241788 R possible fragment; invasion plasmid antigen complement(1240754..1241788) Shigella flexneri 5 str. 8401 4209445 YP_688711.1 CDS SFV_1199 NC_008258.1 1242515 1244251 R 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 complement(1242515..1244251) Shigella flexneri 5 str. 8401 4209446 YP_688712.1 CDS ldcA NC_008258.1 1244346 1245260 R catalyzes the release of D-alanine from L-alanyl-D-glutamyl-meso-diaminopimelyl-D-alanine; L,D-carboxypeptidase A complement(1244346..1245260) Shigella flexneri 5 str. 8401 4209448 YP_688713.1 CDS mltE NC_008258.1 1245246 1245971 D Code: M; COG: COG0741; murein transglycosylase E 1245246..1245971 Shigella flexneri 5 str. 8401 4209447 YP_688714.1 CDS ycgR NC_008258.1 1245973 1246707 R Code: M; COG: COG5581; hypothetical protein complement(1245973..1246707) Shigella flexneri 5 str. 8401 4209449 YP_688715.1 CDS ymgE NC_008258.1 1246875 1247162 D Code: S; COG: COG2261; hypothetical protein 1246875..1247162 Shigella flexneri 5 str. 8401 4209450 YP_688716.1 CDS modD NC_008258.1 1249194 1250048 R involved in molybdenum transport; molybdenum transport protein ModD complement(1249194..1250048) Shigella flexneri 5 str. 8401 4209452 YP_688717.1 CDS SFV_1206 NC_008258.1 1250048 1250752 R Code: QR; COG: COG0500; hypothetical protein complement(1250048..1250752) Shigella flexneri 5 str. 8401 4209453 YP_688718.1 CDS SFV_1207 NC_008258.1 1250867 1251625 R Code: PH; COG: COG1120; iron ABC transporter ATP-binding protein complement(1250867..1251625) Shigella flexneri 5 str. 8401 4209454 YP_688719.1 CDS SFV_1208 NC_008258.1 1251622 1252602 R Code: P; COG: COG0609; iron compound ABC transporter permease complement(1251622..1252602) Shigella flexneri 5 str. 8401 4209455 YP_688720.1 CDS SFV_1209 NC_008258.1 1252602 1253624 R Code: P; COG: COG0614; ATP-binding protein of ABC transporter complement(1252602..1253624) Shigella flexneri 5 str. 8401 4209456 YP_688721.1 CDS SFV_1210 NC_008258.1 1254164 1254976 D hypothetical protein 1254164..1254976 Shigella flexneri 5 str. 8401 4209457 YP_688722.1 CDS treA NC_008258.1 1255207 1256904 R periplasmic; catalyzes the hydrolysis of trehalose to glucose which can then be imported into the cell; trehalase complement(1255207..1256904) Shigella flexneri 5 str. 8401 4209458 YP_688723.1 CDS ycgC NC_008258.1 1257224 1258573 R phosphotransferaese subunit; phosphorylates dihydroxyacetone along with DhaK/DhaL; dihydroxyacetone kinase subunit M complement(1257224..1258573) Shigella flexneri 5 str. 8401 4209459 YP_688724.1 CDS SFV_1213 NC_008258.1 1258653 1259285 R with DhaK and DhaM catalyzes the phosphorylation of dihydroxyacetone; dihydroxyacetone kinase subunit DhaL complement(1258653..1259285) Shigella flexneri 5 str. 8401 4209460 YP_688725.1 CDS SFV_1214 NC_008258.1 1259296 1260366 R 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 complement(1259296..1260366) Shigella flexneri 5 str. 8401 4209461 YP_688726.1 CDS SFV_1215 NC_008258.1 1260672 1262513 D Positively regulates the dhaKLM operon from a sigma-70 promoter; DNA-binding transcriptional regulator DhaR 1260672..1262513 Shigella flexneri 5 str. 8401 4209462 YP_688727.1 CDS SFV_1216 NC_008258.1 1262613 1265480 R adhesion and penetration protein complement(1262613..1265480) Shigella flexneri 5 str. 8401 4209581 YP_688728.1 CDS ychF NC_008258.1 1266324 1267415 R 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 complement(1266324..1267415) Shigella flexneri 5 str. 8401 4209582 YP_688729.1 CDS pth NC_008258.1 1267532 1268116 R Enables the recycling of peptidyl-tRNAs produced at termination of translation; peptidyl-tRNA hydrolase complement(1267532..1268116) Shigella flexneri 5 str. 8401 4209583 YP_688730.1 CDS ychH NC_008258.1 1268394 1268672 D 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 1268394..1268672 Shigella flexneri 5 str. 8401 4209584 YP_688731.1 CDS ychM NC_008258.1 1268727 1270379 R 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 complement(1268727..1270379) Shigella flexneri 5 str. 8401 4209585 YP_688732.1 CDS prsA NC_008258.1 1270531 1271544 R catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP; ribose-phosphate pyrophosphokinase complement(1270531..1271544) Shigella flexneri 5 str. 8401 4209586 YP_688733.1 CDS ipk NC_008258.1 1271629 1272480 R An essential enzyme in the nonmevalonate pathway of isopentenyl diphosphate and dimethylallyl diphosphate biosynthesis; 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase complement(1271629..1272480) Shigella flexneri 5 str. 8401 4209587 YP_688734.1 CDS lolB NC_008258.1 1272480 1273103 R an enzyme in main pathway of synthesis of 5-aminolevulinate; Incorporates lipoproteins in the outer membrane after they are released by the LolA protein; molecular chaperone LolB complement(1272480..1273103) Shigella flexneri 5 str. 8401 4209588 YP_688735.1 CDS hemA NC_008258.1 1273119 1274573 D 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 1273119..1274573 Shigella flexneri 5 str. 8401 4209589 YP_688736.1 CDS prfA NC_008258.1 1274615 1275697 D 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 1274615..1275697 Shigella flexneri 5 str. 8401 4209590 YP_688737.1 CDS hemK NC_008258.1 1275697 1276530 D 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 1275697..1276530 Shigella flexneri 5 str. 8401 4209591 YP_688738.1 CDS SFV_1227 NC_008258.1 1276527 1276919 D Code: S; COG: COG3094; transcriptional regulator 1276527..1276919 Shigella flexneri 5 str. 8401 4209592 YP_688739.1 CDS ychA NC_008258.1 1276923 1277732 D Code: S; COG: COG2912; transcriptional regulator 1276923..1277732 Shigella flexneri 5 str. 8401 4209593 YP_688740.1 CDS kdsA NC_008258.1 1277768 1278622 D 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 1277768..1278622 Shigella flexneri 5 str. 8401 4209594 YP_688741.1 CDS SFV_1230 NC_008258.1 1278996 1280342 R Code: L; COG: COG3385; IS4 orf complement(1278996..1280342) Shigella flexneri 5 str. 8401 4209595 YP_688742.1 CDS SFV_1231 NC_008258.1 1280744 1280878 R hypothetical protein complement(1280744..1280878) Shigella flexneri 5 str. 8401 4209596 YP_688743.1 CDS chaA NC_008258.1 1281256 1282443 R Code: P; COG: COG0387; calcium/sodium:proton antiporter complement(1281256..1282443) Shigella flexneri 5 str. 8401 4209597 YP_688744.1 CDS chaB NC_008258.1 1282626 1282856 D 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 1282626..1282856 Shigella flexneri 5 str. 8401 4209598 YP_688745.1 CDS chaC NC_008258.1 1282993 1283709 D Code: P; COG: COG3703; cation transport regulator 1282993..1283709 Shigella flexneri 5 str. 8401 4209599 YP_688746.1 CDS ychN NC_008258.1 1283753 1284106 R Code: P; COG: COG1553; hypothetical protein complement(1283753..1284106) Shigella flexneri 5 str. 8401 4209654 YP_688747.1 CDS ychP NC_008258.1 1284431 1285684 D hypothetical protein 1284431..1285684 Shigella flexneri 5 str. 8401 4209655 YP_688748.1 CDS narL NC_008258.1 1285685 1286335 R 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 complement(1285685..1286335) Shigella flexneri 5 str. 8401 4209656 YP_688749.1 CDS narX NC_008258.1 1286328 1288124 R acts on NarL regulator; Code: T; COG: COG3850; nitrate/nitrite sensor protein NarX complement(1286328..1288124) Shigella flexneri 5 str. 8401 4209657 YP_688750.1 CDS narK NC_008258.1 1288463 1289854 D Code: P; COG: COG2223; nitrate transport protein nark 1288463..1289854 Shigella flexneri 5 str. 8401 4209658 YP_688751.1 CDS narG NC_008258.1 1290247 1293990 D Code: C; COG: COG5013; nitrate reductase 1 subunit alpha 1290247..1293990 Shigella flexneri 5 str. 8401 4209659 YP_688752.1 CDS narH NC_008258.1 1293987 1295525 D Code: C; COG: COG1140; nitrate reductase 1 subunit beta 1293987..1295525 Shigella flexneri 5 str. 8401 4209660 YP_688753.1 CDS narJ NC_008258.1 1295522 1296232 D Code: C; COG: COG2180; nitrate reductase 1 subunit delta 1295522..1296232 Shigella flexneri 5 str. 8401 4209661 YP_688754.1 CDS narI NC_008258.1 1296232 1296909 D Code: C; COG: COG2181; nitrate reductase 1, cytochrome b(NR) subunit gamma 1296232..1296909 Shigella flexneri 5 str. 8401 4209662 YP_688755.1 CDS purU NC_008258.1 1297515 1298357 R 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 complement(1297515..1298357) Shigella flexneri 5 str. 8401 4209664 YP_688756.1 CDS ychJ NC_008258.1 1298407 1298865 R Code: S; COG: COG3012; hypothetical protein complement(1298407..1298865) Shigella flexneri 5 str. 8401 4209665 YP_688757.1 CDS ychK NC_008258.1 1298978 1299883 D Code: R; COG: COG1752; hypothetical protein 1298978..1299883 Shigella flexneri 5 str. 8401 4209666 YP_688758.1 CDS hnr NC_008258.1 1299975 1300988 D response regulator of RpoS 1299975..1300988 Shigella flexneri 5 str. 8401 4209667 YP_688759.1 CDS galU NC_008258.1 1301190 1302098 D 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 1301190..1302098 Shigella flexneri 5 str. 8401 4209668 YP_688760.1 CDS hns NC_008258.1 1302242 1302655 R Code: R; COG: COG2916; global DNA-binding transcriptional dual regulator H-NS complement(1302242..1302655) Shigella flexneri 5 str. 8401 4209669 YP_688761.1 CDS tdk NC_008258.1 1303260 1303877 D catalyzes the formation of thymidine 5'-phosphate from thymidine; thymidine kinase 1303260..1303877 Shigella flexneri 5 str. 8401 4209670 YP_688762.1 CDS SFV_1252 NC_008258.1 1304163 1305509 R Code: L; COG: COG3385; IS4 orf complement(1304163..1305509) Shigella flexneri 5 str. 8401 4209671 YP_688763.1 CDS adhE NC_008258.1 1305617 1308292 R Code: C; COG: COG1012; bifunctional acetaldehyde-CoA/alcohol dehydrogenase complement(1305617..1308292) Shigella flexneri 5 str. 8401 4209672 YP_688764.1 CDS ychE NC_008258.1 1308769 1309416 D Code: U; COG: COG2095; hypothetical protein 1308769..1309416 Shigella flexneri 5 str. 8401 4209747 YP_688765.1 CDS oppA NC_008258.1 1310154 1311785 D Code: E; COG: COG4166; periplasmic oligopeptide binding protein 1310154..1311785 Shigella flexneri 5 str. 8401 4209748 YP_688766.1 CDS oppB NC_008258.1 1311871 1312791 D Code: EP; COG: COG0601; oligopeptide transporter permease 1311871..1312791 Shigella flexneri 5 str. 8401 4209749 YP_688767.1 CDS oppC NC_008258.1 1312806 1313714 D Code: EP; COG: COG1173; oligopeptide transport permease 1312806..1313714 Shigella flexneri 5 str. 8401 4209750 YP_688768.1 CDS oppD NC_008258.1 1313726 1314739 D Code: EP; COG: COG0444; oligopeptide transporter ATP-binding protein 1313726..1314739 Shigella flexneri 5 str. 8401 4209751 YP_688769.1 CDS oppF NC_008258.1 1314736 1315740 D Code: E; COG: COG4608; peptide ABC transporter ATP-binding protein 1314736..1315740 Shigella flexneri 5 str. 8401 4209752 YP_688770.1 CDS SFV_1260 NC_008258.1 1315793 1316200 R 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 complement(1315793..1316200) Shigella flexneri 5 str. 8401 4209753 YP_688771.1 CDS cls NC_008258.1 1316157 1317533 R catalyzes the transfer of a phosphatidyl group to phosphodidylglycerol to form cardiolipin (diphosphatidylglycerol); cardiolipin synthetase complement(1316157..1317533) Shigella flexneri 5 str. 8401 4209754 YP_688772.1 CDS kch NC_008258.1 1317988 1319241 R Code: P; COG: COG1226; voltage-gated potassium channel complement(1317988..1319241) Shigella flexneri 5 str. 8401 4209755 YP_688773.1 CDS SFV_1263 NC_008258.1 1319604 1319906 D Code: L; COG: COG2963; IS600 ORF1 1319604..1319906 Shigella flexneri 5 str. 8401 4209756 YP_688774.1 CDS SFV_1264 NC_008258.1 1320047 1320760 D Code: L; COG: COG2801; IS600 ORF2 1320047..1320760 Shigella flexneri 5 str. 8401 4209757 YP_688775.2 CDS yciI NC_008258.1 1320808 1321104 R 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; hypothetical protein complement(1320808..1321104) Shigella flexneri 5 str. 8401 4209758 YP_688776.1 CDS tonB NC_008258.1 1321277 1322059 D 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; transport protein TonB 1321277..1322059 Shigella flexneri 5 str. 8401 4209759 YP_688777.1 CDS yciA NC_008258.1 1322099 1322497 R YciA; hydrolase that catalyzes the hydrolysis of the thioester bond in palmitoyl-CoA and malonyl-CoA; member of the the acyl coenzyme A hydrolase of proteins; acyl-CoA thioester hydrolase complement(1322099..1322497) Shigella flexneri 5 str. 8401 4209760 YP_688778.1 CDS yciB NC_008258.1 1322602 1323141 R Involved in cell division; probably involved in intracellular septation; intracellular septation protein A complement(1322602..1323141) Shigella flexneri 5 str. 8401 4209761 YP_688779.1 CDS yciC NC_008258.1 1323171 1323914 R hypothetical protein complement(1323171..1323914) Shigella flexneri 5 str. 8401 4209762 YP_688780.1 CDS yciD NC_008258.1 1324271 1324909 D receptor for colicin S4; outer membrane protein W 1324271..1324909 Shigella flexneri 5 str. 8401 4209763 YP_688781.1 CDS yciE NC_008258.1 1324969 1325475 R Code: S; COG: COG3685; hypothetical protein complement(1324969..1325475) Shigella flexneri 5 str. 8401 4209764 YP_688782.1 CDS yciF NC_008258.1 1325521 1326021 R Code: S; COG: COG3685; structural protein complement(1325521..1326021) Shigella flexneri 5 str. 8401 4209765 YP_688783.1 CDS yciG NC_008258.1 1326107 1326343 R Code: R; COG: COG3729; hypothetical protein complement(1326107..1326343) Shigella flexneri 5 str. 8401 4207043 YP_688784.1 CDS trpA NC_008258.1 1326667 1327473 R catalyzes the formation of indole and glyceraldehyde 3-phosphate from indoleglycerol phosphate in tryptophan biosynthesis; tryptophan synthase subunit alpha complement(1326667..1327473) Shigella flexneri 5 str. 8401 4207044 YP_688785.1 CDS trpB NC_008258.1 1327473 1328666 R catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate; tryptophan synthase subunit beta complement(1327473..1328666) Shigella flexneri 5 str. 8401 4207045 YP_688786.1 CDS trpC NC_008258.1 1328678 1330039 R 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 complement(1328678..1330039) Shigella flexneri 5 str. 8401 4207046 YP_688787.1 CDS trpD NC_008258.1 1330040 1331635 R 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 complement(1330040..1331635) Shigella flexneri 5 str. 8401 4207047 YP_688788.1 CDS trpE NC_008258.1 1331635 1333197 R with component II, the glutamine amidotransferase, catalyzes the formation of anthranilate from chorismate and glutamine; anthranilate synthase component I complement(1331635..1333197) Shigella flexneri 5 str. 8401 4207048 YP_688789.1 CDS yciV NC_008258.1 1333492 1334352 D Code: R; COG: COG0613; hypothetical protein 1333492..1334352 Shigella flexneri 5 str. 8401 4207049 YP_688790.1 CDS yciO NC_008258.1 1334313 1334969 D Code: J; COG: COG0009; hypothetical protein 1334313..1334969 Shigella flexneri 5 str. 8401 4207050 YP_688791.1 CDS yciL NC_008258.1 1335070 1335942 D catalyzes the synthesis of pseudouridine from uracil-2605 in 23S ribosomal RNA; 23S rRNA pseudouridylate synthase B 1335070..1335942 Shigella flexneri 5 str. 8401 4207051 YP_688792.1 CDS btuR NC_008258.1 1335982 1336572 R 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 complement(1335982..1336572) Shigella flexneri 5 str. 8401 4207052 YP_688793.1 CDS yciK NC_008258.1 1336569 1337327 R Code: IQR; COG: COG1028; short chain dehydrogenase complement(1336569..1337327) Shigella flexneri 5 str. 8401 4207053 YP_688794.1 CDS sohB NC_008258.1 1337706 1338596 D SohB; periplasmic protein; member of the peptidase S49 family; periplasmic protease 1337706..1338596 Shigella flexneri 5 str. 8401 4207054 YP_688795.1 CDS topA NC_008258.1 1339221 1341860 D catalyzes the ATP-dependent breakage of single-stranded DNA followed by passage and rejoining, maintains net negative superhelicity; DNA topoisomerase I 1339221..1341860 Shigella flexneri 5 str. 8401 4207055 YP_688796.1 CDS cysB NC_008258.1 1342070 1343044 D 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 1342070..1343044 Shigella flexneri 5 str. 8401 4207056 YP_688797.1 CDS SFV_1287 NC_008258.1 1343339 1343503 D hypothetical protein 1343339..1343503 Shigella flexneri 5 str. 8401 4207057 YP_688798.1 CDS SFV_1288 NC_008258.1 1343507 1343674 D hypothetical protein 1343507..1343674 Shigella flexneri 5 str. 8401 4207058 YP_688799.1 CDS acnA NC_008258.1 1344047 1346722 D Catalyzes the conversion of citrate to isocitrate; aconitate hydratase 1344047..1346722 Shigella flexneri 5 str. 8401 4207059 YP_688800.1 CDS ribA NC_008258.1 1346786 1347376 R catalyzes the conversion of GTP to formate and 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine and diphosphate; GTP cyclohydrolase II complement(1346786..1347376) Shigella flexneri 5 str. 8401 4207060 YP_688801.1 CDS pgpB NC_008258.1 1347546 1348310 D Code: I; COG: COG0671; phosphatidylglycerophosphatase B 1347546..1348310 Shigella flexneri 5 str. 8401 4207061 YP_688802.1 CDS yciS NC_008258.1 1348459 1348767 D Code: S; COG: COG3771; hypothetical protein 1348459..1348767 Shigella flexneri 5 str. 8401 4207062 YP_688803.1 CDS yciM NC_008258.1 1348828 1349943 D Code: G; COG: COG2956; tetratricopeptide repeat-containing protein 1348828..1349943 Shigella flexneri 5 str. 8401 4210729 YP_688804.1 CDS pyrF NC_008258.1 1350136 1350873 D 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 1350136..1350873 Shigella flexneri 5 str. 8401 4210730 YP_688805.1 CDS yciH NC_008258.1 1350873 1351199 D involved in start site selection during the initiation of translation; translation initiation factor Sui1 1350873..1351199 Shigella flexneri 5 str. 8401 4210731 YP_688806.1 CDS osmB NC_008258.1 1351325 1351543 R lipoprotein complement(1351325..1351543) Shigella flexneri 5 str. 8401 4210732 YP_688807.1 CDS SFV_1297 NC_008258.1 1351812 1352561 R Code: KG; COG: COG1349; DeoR-type transcriptional regulator complement(1351812..1352561) Shigella flexneri 5 str. 8401 4210733 YP_688808.1 CDS SFV_1298 NC_008258.1 1352651 1352824 R hypothetical protein complement(1352651..1352824) Shigella flexneri 5 str. 8401 4210734 YP_688809.1 CDS rnb NC_008258.1 1355180 1357114 R Involved in mRNA degradation. Hydrolyzes single-stranded polyribonucleotides processively in the 3' to 5' direction; exoribonuclease II complement(1355180..1357114) Shigella flexneri 5 str. 8401 4210736 YP_688810.1 CDS yciW NC_008258.1 1357182 1358309 R oxidoreductase complement(1357182..1358309) Shigella flexneri 5 str. 8401 4210737 YP_688811.1 CDS fabI NC_008258.1 1358453 1359241 R Catalyzes a key regulatory step in fatty acid biosynthesis; enoyl-ACP reductase complement(1358453..1359241) Shigella flexneri 5 str. 8401 4210738 YP_688812.1 CDS ycjD NC_008258.1 1359609 1359959 R Code: S; COG: COG2852; hypothetical protein complement(1359609..1359959) Shigella flexneri 5 str. 8401 4210739 YP_688813.1 CDS sapF NC_008258.1 1360030 1360836 R Code: V; COG: COG4167; peptide ABC transporter ATP-binding protein complement(1360030..1360836) Shigella flexneri 5 str. 8401 4210740 YP_688814.1 CDS sapD NC_008258.1 1360838 1361830 R Code: V; COG: COG4170; peptide ABC transporter ATP-binding protein complement(1360838..1361830) Shigella flexneri 5 str. 8401 4210741 YP_688815.1 CDS sapC NC_008258.1 1361830 1362720 R Code: V; COG: COG4171; peptide transport permease complement(1361830..1362720) Shigella flexneri 5 str. 8401 4210742 YP_688816.1 CDS sapB NC_008258.1 1362707 1363672 R Code: V; COG: COG4168; peptide transport permease complement(1362707..1363672) Shigella flexneri 5 str. 8401 4210743 YP_688817.1 CDS sapA NC_008258.1 1363669 1365312 R Code: E; COG: COG4166; peptide transport periplasmic protein complement(1363669..1365312) Shigella flexneri 5 str. 8401 4210744 YP_688818.1 CDS ymjA NC_008258.1 1365625 1365870 R hypothetical protein complement(1365625..1365870) Shigella flexneri 5 str. 8401 4210745 YP_688819.1 CDS ycjJ NC_008258.1 1366004 1367389 R Code: E; COG: COG0531; amino acid/amine transport protein complement(1366004..1367389) Shigella flexneri 5 str. 8401 4210746 YP_688820.1 CDS SFV_1311 NC_008258.1 1367692 1369110 R Code: E; COG: COG0174; glutamine synthetase complement(1367692..1369110) Shigella flexneri 5 str. 8401 4210747 YP_688821.1 CDS ycjL NC_008258.1 1369449 1370087 D Code: R; COG: COG2071; gamma-glutamyl-gamma-aminobutyrate hydrolase 1369449..1370087 Shigella flexneri 5 str. 8401 4209347 YP_688822.1 CDS ycjC NC_008258.1 1370284 1370670 D regulates genes involved in putrescine degradation; DNA-binding transcriptional repressor PuuR 1370284..1370670 Shigella flexneri 5 str. 8401 4209348 YP_688823.1 CDS aldH NC_008258.1 1370820 1372307 D catalyzes the formation of gamma-glutamyl-gamma-aminobutyrate from Gamma-glutamyl-gamma-aminobutyraldehyde; involved in putrescine degradation; gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase 1370820..1372307 Shigella flexneri 5 str. 8401 4209349 YP_688824.1 CDS ordL NC_008258.1 1372309 1373589 D Code: E; COG: COG0665; oxidoreductase 1372309..1373589 Shigella flexneri 5 str. 8401 4209350 YP_688825.1 CDS goaG NC_008258.1 1373627 1374892 D putrescine-inducible GABA aminotransferase; catalyzes the formation of glutamate and succinate semialdehyde from 4-aminobutyrate and 2-oxoglutarate; 4-aminobutyrate aminotransferase 1373627..1374892 Shigella flexneri 5 str. 8401 4209351 YP_688826.1 CDS pspF NC_008258.1 1375012 1375989 R 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 complement(1375012..1375989) Shigella flexneri 5 str. 8401 4209352 YP_688827.1 CDS pspA NC_008258.1 1376156 1376824 D 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 1376156..1376824 Shigella flexneri 5 str. 8401 4209353 YP_688828.1 CDS pspB NC_008258.1 1376878 1377102 D 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 1376878..1377102 Shigella flexneri 5 str. 8401 4209354 YP_688829.1 CDS pspC NC_008258.1 1377102 1377461 D 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 1377102..1377461 Shigella flexneri 5 str. 8401 4209355 YP_688830.1 CDS pspD NC_008258.1 1377458 1377691 D peripheral inner membrane phage-shock protein 1377458..1377691 Shigella flexneri 5 str. 8401 4209356 YP_688831.1 CDS pspE NC_008258.1 1377734 1378081 D rhodanese; catalyzes the formation of thiocyanate from thiosulfate and hydrogen cyanide; thiosulfate:cyanide sulfurtransferase 1377734..1378081 Shigella flexneri 5 str. 8401 4209357 YP_688832.1 CDS insB NC_008258.1 1379646 1380149 D Code: L; COG: COG1662; IS1 ORF2 1379646..1380149 Shigella flexneri 5 str. 8401 4209359 YP_688833.1 CDS ycjO NC_008258.1 1382067 1382948 D Code: G; COG: COG1175; binding-protein dependent transport protein 1382067..1382948 Shigella flexneri 5 str. 8401 4209361 YP_688834.1 CDS ycjP NC_008258.1 1382935 1383777 D Code: G; COG: COG0395; transport system permease 1382935..1383777 Shigella flexneri 5 str. 8401 4209362 YP_688835.1 CDS ycjQ NC_008258.1 1383808 1384860 D Code: ER; COG: COG1063; oxidoreductase 1383808..1384860 Shigella flexneri 5 str. 8401 4209363 YP_688836.1 CDS ycjT NC_008258.1 1386714 1388981 D Code: G; COG: COG1554; hypothetical protein 1386714..1388981 Shigella flexneri 5 str. 8401 4209366 YP_688837.1 CDS ycjU NC_008258.1 1388978 1389637 D Code: R; COG: COG0637; beta-phosphoglucomutase 1388978..1389637 Shigella flexneri 5 str. 8401 4209522 YP_688838.1 CDS ycjV NC_008258.1 1389651 1390619 D Code: G; COG: COG3839; ABC transporter ATP-binding protein 1389651..1390619 Shigella flexneri 5 str. 8401 4209523 YP_688839.1 CDS ycjW NC_008258.1 1391788 1392786 R Code: K; COG: COG1609; LACI-type transcriptional regulator complement(1391788..1392786) Shigella flexneri 5 str. 8401 4209525 YP_688840.1 CDS ycjX NC_008258.1 1392942 1394339 D Code: R; COG: COG3106; hypothetical protein 1392942..1394339 Shigella flexneri 5 str. 8401 4209526 YP_688841.1 CDS ycjF NC_008258.1 1394336 1395397 D Code: S; COG: COG3768; hypothetical protein 1394336..1395397 Shigella flexneri 5 str. 8401 4209527 YP_688842.1 CDS tyrR NC_008258.1 1395545 1397086 D regulates genes involved in the biosynthesis and transport of aromatic amino acids; DNA-binding transcriptional regulator TyrR 1395545..1397086 Shigella flexneri 5 str. 8401 4209528 YP_688843.1 CDS tpx NC_008258.1 1397130 1397636 R antioxidant activity; thioredoxin-dependent thiol peroxidase; forms homodimers in solution; shows substrate specificity to alkyl hydroperoxides; periplasmic protein; thiol peroxidase complement(1397130..1397636) Shigella flexneri 5 str. 8401 4209529 YP_688844.1 CDS ycjG NC_008258.1 1397755 1398720 D Code: MR; COG: COG4948; muconate cycloisomerase I 1397755..1398720 Shigella flexneri 5 str. 8401 4209530 YP_688845.1 CDS ycjI NC_008258.1 1398695 1399483 R Code: E; COG: COG2866; murein peptide amidase A complement(1398695..1399483) Shigella flexneri 5 str. 8401 4209531 YP_688846.1 CDS SFV_1343 NC_008258.1 1399714 1400352 R Code: MG; COG: COG0702; hypothetical protein complement(1399714..1400352) Shigella flexneri 5 str. 8401 4209532 YP_688847.1 CDS SFV_1344 NC_008258.1 1400370 1400900 R Code: R; COG: COG1073; hypothetical protein complement(1400370..1400900) Shigella flexneri 5 str. 8401 4209533 YP_688848.1 CDS SFV_1345 NC_008258.1 1401180 1402376 D Code: L; COG: COG3547; ISSfl2 ORF 1401180..1402376 Shigella flexneri 5 str. 8401 4209534 YP_688849.1 CDS SFV_1346 NC_008258.1 1402390 1402752 R Code: R; COG: COG1073; hypothetical protein complement(1402390..1402752) Shigella flexneri 5 str. 8401 4209535 YP_688850.1 CDS SFV_1347 NC_008258.1 1402752 1403669 R Code: R; COG: COG1073; hypothetical protein complement(1402752..1403669) Shigella flexneri 5 str. 8401 4209536 YP_688851.1 CDS SFV_1348 NC_008258.1 1404289 1405002 R Code: L; COG: COG2801; IS600 ORF2 complement(1404289..1405002) Shigella flexneri 5 str. 8401 4209537 YP_688852.1 CDS SFV_1349 NC_008258.1 1405143 1405445 R Code: L; COG: COG2963; IS600 ORF1 complement(1405143..1405445) Shigella flexneri 5 str. 8401 4209538 YP_688853.1 CDS SFV_1350 NC_008258.1 1405782 1406120 D Code: L; COG: COG2963; IS911 ORF1 1405782..1406120 Shigella flexneri 5 str. 8401 4209539 YP_688854.1 CDS SFV_1351 NC_008258.1 1406421 1406987 D IS911 ORF2 1406421..1406987 Shigella flexneri 5 str. 8401 4209540 YP_688855.2 CDS SFV_1352 NC_008258.1 1407226 1408131 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(1407226..1408131) Shigella flexneri 5 str. 8401 4209600 YP_688856.1 CDS SFV_1353 NC_008258.1 1408089 1408499 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(1408089..1408499) Shigella flexneri 5 str. 8401 4209601 YP_688857.1 CDS SFV_1354 NC_008258.1 1408711 1409286 D bacteriophage protein 1408711..1409286 Shigella flexneri 5 str. 8401 4209602 YP_688858.1 CDS SFV_1355 NC_008258.1 1409293 1410039 D Code: L; COG: COG1484; replication protein 1409293..1410039 Shigella flexneri 5 str. 8401 4209603 YP_688859.1 CDS SFV_1356 NC_008258.1 1410534 1410890 D bacteriophage protein 1410534..1410890 Shigella flexneri 5 str. 8401 4209604 YP_688860.1 CDS SFV_1357 NC_008258.1 1410983 1411201 D hypothetical protein 1410983..1411201 Shigella flexneri 5 str. 8401 4209605 YP_688861.1 CDS SFV_1358 NC_008258.1 1411565 1412230 D hypothetical protein 1411565..1412230 Shigella flexneri 5 str. 8401 4209606 YP_688862.1 CDS SFV_1359 NC_008258.1 1412230 1412664 D bacteriophage protein 1412230..1412664 Shigella flexneri 5 str. 8401 4209607 YP_688863.1 CDS insB NC_008258.1 1413700 1414203 R Code: L; COG: COG1662; IS1 ORF2 complement(1413700..1414203) Shigella flexneri 5 str. 8401 4209608 YP_688864.1 CDS SFV_1361 NC_008258.1 1414531 1415130 D prophage protein 1414531..1415130 Shigella flexneri 5 str. 8401 4209609 YP_688865.1 CDS SFV_1362 NC_008258.1 1415130 1415420 D bacteriophage protein 1415130..1415420 Shigella flexneri 5 str. 8401 4209610 YP_688866.1 CDS SFV_1363 NC_008258.1 1415417 1415971 D hypothetical protein 1415417..1415971 Shigella flexneri 5 str. 8401 4209611 YP_688867.1 CDS SFV_1368 NC_008258.1 1416586 1418190 D integrase 1416586..1418190 Shigella flexneri 5 str. 8401 4209635 YP_688868.1 CDS SFV_1369 NC_008258.1 1419333 1419515 R IS1 encoded protein complement(1419333..1419515) Shigella flexneri 5 str. 8401 4209636 YP_688869.1 CDS insB NC_008258.1 1419590 1420093 D Code: L; COG: COG1662; IS1 ORF2 1419590..1420093 Shigella flexneri 5 str. 8401 4209637 YP_688870.1 CDS SFV_1371 NC_008258.1 1420301 1421014 D Code: L; COG: COG2801; IS600 ORF2 1420301..1421014 Shigella flexneri 5 str. 8401 4209638 YP_688871.1 CDS SFV_1372 NC_008258.1 1421042 1421410 D IS1 encoded protein 1421042..1421410 Shigella flexneri 5 str. 8401 4209639 YP_688872.1 CDS SFV_1373 NC_008258.1 1421607 1421978 D tail fiber assembly protein 1421607..1421978 Shigella flexneri 5 str. 8401 4209640 YP_688873.1 CDS SFV_1374 NC_008258.1 1422002 1423270 D tail fiber protein 1422002..1423270 Shigella flexneri 5 str. 8401 4209641 YP_688874.1 CDS SFV_1375 NC_008258.1 1423221 1423844 D hypothetical protein 1423221..1423844 Shigella flexneri 5 str. 8401 4209642 YP_688875.1 CDS sitD NC_008258.1 1424045 1424902 R Code: P; COG: COG1108; Iron transport protein, inner membrane component complement(1424045..1424902) Shigella flexneri 5 str. 8401 4209643 YP_688876.1 CDS sitC NC_008258.1 1424899 1425582 R Code: P; COG: COG1108; Iron transport protein complement(1424899..1425582) Shigella flexneri 5 str. 8401 4209644 YP_688877.1 CDS sitB NC_008258.1 1425753 1426580 R Code: P; COG: COG1121; iron ABC transporter ATP-binding protein complement(1425753..1426580) Shigella flexneri 5 str. 8401 4209645 YP_688878.1 CDS sitA NC_008258.1 1426580 1427494 R Code: P; COG: COG0803; Iron transport protein complement(1426580..1427494) Shigella flexneri 5 str. 8401 4209646 YP_688879.1 CDS SFV_1380 NC_008258.1 1427945 1428550 R integrase for prophage complement(1427945..1428550) Shigella flexneri 5 str. 8401 4209647 YP_688880.1 CDS SFV_1381 NC_008258.1 1428550 1428759 R IS1 encoded protein complement(1428550..1428759) Shigella flexneri 5 str. 8401 4209648 YP_688881.1 CDS insB NC_008258.1 1428834 1429337 D Code: L; COG: COG1662; IS1 ORF2 1428834..1429337 Shigella flexneri 5 str. 8401 4209649 YP_688882.1 CDS SFV_1383 NC_008258.1 1429728 1430402 D ISSfl4 ORF1 1429728..1430402 Shigella flexneri 5 str. 8401 4209650 YP_688883.1 CDS SFV_1384 NC_008258.1 1430399 1430746 D Code: L; COG: COG3436; ISSfl4 ORF2 1430399..1430746 Shigella flexneri 5 str. 8401 4209651 YP_688884.1 CDS SFV_1385 NC_008258.1 1430766 1432367 D Code: L; COG: COG3436; ISSfl4 ORF3 1430766..1432367 Shigella flexneri 5 str. 8401 4209652 YP_688885.1 CDS SFV_1386 NC_008258.1 1432626 1433249 D tail component of prophage 1432626..1433249 Shigella flexneri 5 str. 8401 4209653 YP_688886.1 CDS ipaH_2 NC_008258.1 1433429 1435084 R Code: S; COG: COG4886; invasion plasmid antigen complement(1433429..1435084) Shigella flexneri 5 str. 8401 4207870 YP_688887.1 CDS SFV_1389 NC_008258.1 1436336 1436638 D Code: L; COG: COG2963; IS600 ORF1 1436336..1436638 Shigella flexneri 5 str. 8401 4207872 YP_688888.1 CDS SFV_1390 NC_008258.1 1436779 1437492 D Code: L; COG: COG2801; IS600 ORF2 1436779..1437492 Shigella flexneri 5 str. 8401 4207873 YP_688889.1 CDS SFV_1391 NC_008258.1 1437749 1438024 R hypothetical protein complement(1437749..1438024) Shigella flexneri 5 str. 8401 4207874 YP_688890.1 CDS SFV_1392 NC_008258.1 1438045 1438281 R hypothetical protein complement(1438045..1438281) Shigella flexneri 5 str. 8401 4207875 YP_688891.1 CDS yebU NC_008258.1 1438399 1439844 R in Escherichia coli this enzyme specifically methylates C1407 of the 16S rRNA; rRNA (cytosine-C(5)-)-methyltransferase RsmF complement(1438399..1439844) Shigella flexneri 5 str. 8401 4207876 YP_688892.1 CDS SFV_1394 NC_008258.1 1439918 1441840 R Code: R; COG: COG3008; hypothetical protein complement(1439918..1441840) Shigella flexneri 5 str. 8401 4207877 YP_688893.1 CDS SFV_1395 NC_008258.1 1441886 1442557 R paraquat-inducible protein complement(1441886..1442557) Shigella flexneri 5 str. 8401 4207878 YP_688894.1 CDS SFV_1396 NC_008258.1 1442520 1443803 R Code: S; COG: COG2995; hypothetical protein complement(1442520..1443803) Shigella flexneri 5 str. 8401 4207879 YP_688895.1 CDS SFV_1397 NC_008258.1 1443933 1444430 D Code: T; COG: COG1956; hypothetical protein 1443933..1444430 Shigella flexneri 5 str. 8401 4207880 YP_688896.1 CDS proQ NC_008258.1 1444527 1445225 D affects solute and DNA transport through an unknown mechanism; solute/DNA competence effector 1444527..1445225 Shigella flexneri 5 str. 8401 4207881 YP_688897.1 CDS prc NC_008258.1 1445245 1447293 D Involved in the cleavage of a C-terminal peptide of 11 residues from the precursor form of penicillin-binding protein 3; carboxy-terminal protease 1445245..1447293 Shigella flexneri 5 str. 8401 4207882 YP_688898.1 CDS htpX NC_008258.1 1447485 1448366 D metalloprotease; heat shock protein HtpX 1447485..1448366 Shigella flexneri 5 str. 8401 4207883 YP_688899.1 CDS SFV_1401 NC_008258.1 1448412 1449896 R Code: GEPR; COG: COG0477; transport protein complement(1448412..1449896) Shigella flexneri 5 str. 8401 4207884 YP_688900.1 CDS SFV_1402 NC_008258.1 1449962 1450753 D Code: K; COG: COG1414; regulator 1449962..1450753 Shigella flexneri 5 str. 8401 4207885 YP_688901.1 CDS SFV_1403 NC_008258.1 1451294 1451437 D hypothetical protein 1451294..1451437 Shigella flexneri 5 str. 8401 4207886 YP_688902.1 CDS SFV_1404 NC_008258.1 1451512 1451799 D hypothetical protein 1451512..1451799 Shigella flexneri 5 str. 8401 4207887 YP_688903.1 CDS cspC NC_008258.1 1452625 1452834 D Code: K; COG: COG1278; cold shock-like protein CspC 1452625..1452834 Shigella flexneri 5 str. 8401 4207888 YP_688904.1 CDS rrmA NC_008258.1 1453000 1453809 D methylates the guanosine in position 745 of 23S rRNA; required for translation and cell growth; 23S rRNA methyltransferase 1453000..1453809 Shigella flexneri 5 str. 8401 4209483 YP_688905.1 CDS SFV_1407 NC_008258.1 1453806 1454615 R Code: S; COG: COG1971; hypothetical protein complement(1453806..1454615) Shigella flexneri 5 str. 8401 4209484 YP_688906.1 CDS insB NC_008258.1 1454835 1455338 R Code: L; COG: COG1662; IS1 ORF2 complement(1454835..1455338) Shigella flexneri 5 str. 8401 4209485 YP_688907.1 CDS SFV_1409 NC_008258.1 1455561 1456037 R Code: S; COG: COG4811; hypothetical protein complement(1455561..1456037) Shigella flexneri 5 str. 8401 4209486 YP_688908.1 CDS manZ NC_008258.1 1456092 1456943 R 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 complement(1456092..1456943) Shigella flexneri 5 str. 8401 4209487 YP_688909.1 CDS manY NC_008258.1 1456956 1457756 R Code: G; COG: COG3715; PTS enzyme IIC, mannose-specific complement(1456956..1457756) Shigella flexneri 5 str. 8401 4209488 YP_688910.1 CDS manX NC_008258.1 1457819 1458790 R PTS enzyme IIAB complement(1457819..1458790) Shigella flexneri 5 str. 8401 4209489 YP_688911.1 CDS yoaE NC_008258.1 1459253 1460803 D transport protein 1459253..1460803 Shigella flexneri 5 str. 8401 4209490 YP_688912.1 CDS SFV_1414 NC_008258.1 1460807 1462405 R hypothetical protein complement(1460807..1462405) Shigella flexneri 5 str. 8401 4209491 YP_688913.1 CDS sdaA NC_008258.1 1462536 1463882 R Code: E; COG: COG1760; L-serine deaminase complement(1462536..1463882) Shigella flexneri 5 str. 8401 4209492 YP_688914.1 CDS yeaB NC_008258.1 1464084 1464662 R Code: LR; COG: COG0494; hypothetical protein complement(1464084..1464662) Shigella flexneri 5 str. 8401 4209493 YP_688915.1 CDS pabB NC_008258.1 1464666 1466027 R Code: EH; COG: COG0147; para-aminobenzoate synthase component I complement(1464666..1466027) Shigella flexneri 5 str. 8401 4209494 YP_688916.1 CDS SFV_1418 NC_008258.1 1466101 1466280 D Code: S; COG: COG3140; hypothetical protein 1466101..1466280 Shigella flexneri 5 str. 8401 4209495 YP_688917.1 CDS SFV_1419 NC_008258.1 1466400 1466759 R hypothetical protein complement(1466400..1466759) Shigella flexneri 5 str. 8401 4209496 YP_688918.1 CDS SFV_1420 NC_008258.1 1467115 1467507 R Code: J; COG: COG0251; hypothetical protein complement(1467115..1467507) Shigella flexneri 5 str. 8401 4209497 YP_688919.1 CDS SFV_1421 NC_008258.1 1467591 1469501 D Code: KL; COG: COG1199; hypothetical protein 1467591..1469501 Shigella flexneri 5 str. 8401 4209498 YP_688920.1 CDS yeaZ NC_008258.1 1469559 1470254 D Code: O; COG: COG1214; hypothetical protein 1469559..1470254 Shigella flexneri 5 str. 8401 4209499 YP_688921.1 CDS SFV_1423 NC_008258.1 1470294 1470875 D Code: M; COG: COG3065; outer membrane protein 1470294..1470875 Shigella flexneri 5 str. 8401 4209500 YP_688922.1 CDS fadD NC_008258.1 1471047 1472765 D Activates fatty acids by binding to coenzyme A; long-chain-fatty-acid--CoA ligase 1471047..1472765 Shigella flexneri 5 str. 8401 4209501 YP_688923.1 CDS rnd NC_008258.1 1472835 1473962 D Code: J; COG: COG0349; ribonuclease D 1472835..1473962 Shigella flexneri 5 str. 8401 4209502 YP_688924.1 CDS yeaX NC_008258.1 1474016 1474981 R Code: C; COG: COG1018; diogenase subunit beta complement(1474016..1474981) Shigella flexneri 5 str. 8401 4207381 YP_688925.1 CDS SFV_1427 NC_008258.1 1475037 1475630 R dioxygenase subunit alpha complement(1475037..1475630) Shigella flexneri 5 str. 8401 4207382 YP_688926.1 CDS SFV_1428 NC_008258.1 1475669 1475971 D Code: L; COG: COG2963; IS600 ORF1 1475669..1475971 Shigella flexneri 5 str. 8401 4207383 YP_688927.1 CDS SFV_1429 NC_008258.1 1476112 1476825 D Code: L; COG: COG2801; IS600 ORF2 1476112..1476825 Shigella flexneri 5 str. 8401 4207384 YP_688928.1 CDS SFV_1430 NC_008258.1 1476822 1477217 R hypothetical protein complement(1476822..1477217) Shigella flexneri 5 str. 8401 4207385 YP_688929.1 CDS SFV_1431 NC_008258.1 1477489 1477668 R IS1 encoded protein complement(1477489..1477668) Shigella flexneri 5 str. 8401 4207386 YP_688930.1 CDS insB NC_008258.1 1477743 1478246 D Code: L; COG: COG1662; IS1 ORF2 1477743..1478246 Shigella flexneri 5 str. 8401 4207387 YP_688931.1 CDS yeaF NC_008258.1 1478670 1479416 D Code: M; COG: COG3713; hypothetical protein 1478670..1479416 Shigella flexneri 5 str. 8401 4207388 YP_688932.1 CDS SFV_1434 NC_008258.1 1479506 1480267 D Code: R; COG: COG0656; aldehyde reductase 1479506..1480267 Shigella flexneri 5 str. 8401 4207389 YP_688933.1 CDS yeaD NC_008258.1 1480318 1481202 R Code: G; COG: COG0676; hypothetical protein complement(1480318..1481202) Shigella flexneri 5 str. 8401 4207390 YP_688934.1 CDS gapA NC_008258.1 1481286 1482281 R Code: G; COG: COG0057; glyceraldehyde-3-phosphate dehydrogenase complement(1481286..1482281) Shigella flexneri 5 str. 8401 4207391 YP_688935.1 CDS yeaA NC_008258.1 1482624 1483037 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 1482624..1483037 Shigella flexneri 5 str. 8401 4207392 YP_688936.1 CDS SFV_1438 NC_008258.1 1483034 1483351 D Code: S; COG: COG3139; hypothetical protein 1483034..1483351 Shigella flexneri 5 str. 8401 4207393 YP_688937.1 CDS SFV_1439 NC_008258.1 1483721 1484797 D Code: ER; COG: COG1063; oxidoreductase 1483721..1484797 Shigella flexneri 5 str. 8401 4207394 YP_688938.1 CDS SFV_1440 NC_008258.1 1484824 1486053 D Code: GEPR; COG: COG0477; transport protein 1484824..1486053 Shigella flexneri 5 str. 8401 4207395 YP_688939.1 CDS SFV_1442 NC_008258.1 1487272 1488108 D Code: G; COG: COG0191; aldolase 1487272..1488108 Shigella flexneri 5 str. 8401 4207397 YP_688940.1 CDS SFV_1443 NC_008258.1 1488113 1489060 D Code: G; COG: COG0524; kinase 1488113..1489060 Shigella flexneri 5 str. 8401 4207398 YP_688941.1 CDS SFV_1444 NC_008258.1 1489070 1490050 D Code: C; COG: COG0667; hypothetical protein 1489070..1490050 Shigella flexneri 5 str. 8401 4207399 YP_688942.1 CDS SFV_1445 NC_008258.1 1490223 1490945 D Code: KG; COG: COG1349; DeoR-type transcriptional regulator 1490223..1490945 Shigella flexneri 5 str. 8401 4207740 YP_688943.1 CDS SFV_1447 NC_008258.1 1491826 1492017 R IS1 encoded protein complement(1491826..1492017) Shigella flexneri 5 str. 8401 4207742 YP_688944.1 CDS insB NC_008258.1 1492092 1492595 D Code: L; COG: COG1662; IS1 ORF2 1492092..1492595 Shigella flexneri 5 str. 8401 4207743 YP_688945.1 CDS ydjB NC_008258.1 1493291 1493932 R catalyzes the formation of nicotinate from nicotinamide in NAD biosynthesis and the formation of pyrazinoate from pyrazinamide; nicotinamidase/pyrazinamidase complement(1493291..1493932) Shigella flexneri 5 str. 8401 4207744 YP_688946.1 CDS ansA NC_008258.1 1493943 1494911 R converts asparagine to aspartate and ammonia; cytoplasmic asparaginase I complement(1493943..1494911) Shigella flexneri 5 str. 8401 4207745 YP_688947.1 CDS sppA NC_008258.1 1495126 1496982 R SppA; catalyzes the degradation of cleaved signal peptides; essential to maintain secretion of mature proteins across the membrane; protease 4 complement(1495126..1496982) Shigella flexneri 5 str. 8401 4207746 YP_688948.1 CDS ydjA NC_008258.1 1497161 1497694 D Code: C; COG: COG0778; hypothetical protein 1497161..1497694 Shigella flexneri 5 str. 8401 4207747 YP_688949.1 CDS selD NC_008258.1 1497811 1498854 D catalyzes the formation of selenophosphate from selenide and ATP; selenophosphate synthetase 1497811..1498854 Shigella flexneri 5 str. 8401 4207748 YP_688950.1 CDS topB NC_008258.1 1498802 1500820 D decatenates replicating daughter chromosomes; DNA topoisomerase III 1498802..1500820 Shigella flexneri 5 str. 8401 4207749 YP_688951.1 CDS SFV_1455 NC_008258.1 1500948 1501646 D hypothetical protein 1500948..1501646 Shigella flexneri 5 str. 8401 4207750 YP_688952.1 CDS insB NC_008258.1 1501874 1502377 D Code: L; COG: COG1662; IS1 ORF2 1501874..1502377 Shigella flexneri 5 str. 8401 4207751 YP_688953.1 CDS gdhA NC_008258.1 1502882 1504225 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(1502882..1504225) Shigella flexneri 5 str. 8401 4207752 YP_688954.1 CDS SFV_1458 NC_008258.1 1504461 1504733 D hypothetical protein 1504461..1504733 Shigella flexneri 5 str. 8401 4207753 YP_688955.1 CDS SFV_1459 NC_008258.1 1504699 1505106 R Code: LR; COG: COG0494; pyrimidine (deoxy)nucleoside triphosphate pyrophosphohydrolase complement(1504699..1505106) Shigella flexneri 5 str. 8401 4207754 YP_688956.1 CDS SFV_1460 NC_008258.1 1505193 1505750 D Code: I; COG: COG0558; cytochrome oxidase 1505193..1505750 Shigella flexneri 5 str. 8401 4207755 YP_688957.1 CDS SFV_1462 NC_008258.1 1507133 1507786 R Code: R; COG: COG4136; ABC transporter ATP-binding protein complement(1507133..1507786) Shigella flexneri 5 str. 8401 4207757 YP_688958.1 CDS SFV_1464 NC_008258.1 1509276 1509731 R hypothetical protein complement(1509276..1509731) Shigella flexneri 5 str. 8401 4207759 YP_688959.1 CDS SFV_1465 NC_008258.1 1510159 1511505 D Code: L; COG: COG3385; IS4 orf 1510159..1511505 Shigella flexneri 5 str. 8401 4208091 YP_688960.1 CDS SFV_1466 NC_008258.1 1511516 1511800 R hypothetical protein complement(1511516..1511800) Shigella flexneri 5 str. 8401 4208092 YP_688961.1 CDS ynjA NC_008258.1 1511855 1512403 R Code: S; COG: COG2128; hypothetical protein complement(1511855..1512403) Shigella flexneri 5 str. 8401 4208093 YP_688962.1 CDS ydjZ NC_008258.1 1512403 1513107 R Code: S; COG: COG0398; hypothetical protein complement(1512403..1513107) Shigella flexneri 5 str. 8401 4208094 YP_688963.1 CDS ydjY NC_008258.1 1513125 1513802 R hypothetical protein complement(1513125..1513802) Shigella flexneri 5 str. 8401 4208095 YP_688964.1 CDS ydjX NC_008258.1 1513807 1514517 R Code: S; COG: COG0398; hypothetical protein complement(1513807..1514517) Shigella flexneri 5 str. 8401 4208096 YP_688965.1 CDS xthA NC_008258.1 1514684 1515490 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(1514684..1515490) Shigella flexneri 5 str. 8401 4208097 YP_688966.1 CDS SFV_1473 NC_008258.1 1517153 1518187 D Code: E; COG: COG3138; arginine succinyltransferase 1517153..1518187 Shigella flexneri 5 str. 8401 4208099 YP_688967.1 CDS astD NC_008258.1 1518184 1519662 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 1518184..1519662 Shigella flexneri 5 str. 8401 4208100 YP_688968.1 CDS ydjS NC_008258.1 1520985 1521953 D catalyzes the formation of succinate and glutamate from N(2)-succinylglutamate in arginine catabolism; succinylglutamate desuccinylase 1520985..1521953 Shigella flexneri 5 str. 8401 4208102 YP_688969.1 CDS spy NC_008258.1 1522283 1522768 D related to spheroblast formation; periplasmic protein induced by stress response via Cpx and BaeSR system; similar to CpxP; periplasmic protein 1522283..1522768 Shigella flexneri 5 str. 8401 4208103 YP_688970.1 CDS SFV_1478 NC_008258.1 1522908 1523546 D Code: S; COG: COG3758; hypothetical protein 1522908..1523546 Shigella flexneri 5 str. 8401 4208104 YP_688971.1 CDS SFV_1479 NC_008258.1 1523506 1524393 R 3' incision activity; acts with UvrC; nucleotide excision repair endonuclease complement(1523506..1524393) Shigella flexneri 5 str. 8401 4208105 YP_688972.1 CDS nadE NC_008258.1 1524623 1525450 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(1524623..1525450) Shigella flexneri 5 str. 8401 4208106 YP_688973.1 CDS osmE NC_008258.1 1525652 1525990 D osmotically-inducible lipoprotein E; activator of ntr-like gene protein; DNA-binding transcriptional activator OsmE 1525652..1525990 Shigella flexneri 5 str. 8401 4208107 YP_688974.1 CDS celA NC_008258.1 1526289 1526609 D 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 1526289..1526609 Shigella flexneri 5 str. 8401 4208108 YP_688975.1 CDS celB NC_008258.1 1526694 1528043 D 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 IIC 1526694..1528043 Shigella flexneri 5 str. 8401 4208109 YP_688976.1 CDS celC NC_008258.1 1527997 1528452 D for cellobiose, arbutin, and salicin; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; involved 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 IIA 1527997..1528452 Shigella flexneri 5 str. 8401 4207604 YP_688977.1 CDS celF NC_008258.1 1529407 1530759 D Code: G; COG: COG1486; cryptic phospho-beta-glucosidase; cryptic 1529407..1530759 Shigella flexneri 5 str. 8401 4207606 YP_688978.1 CDS ydjC NC_008258.1 1530772 1531530 D Code: S; COG: COG3394; hypothetical protein 1530772..1531530 Shigella flexneri 5 str. 8401 4207607 YP_688979.1 CDS katE NC_008258.1 1531577 1533838 R hydroperoxidase HPII(III); Catalase HPII; monofunctional catalase that decomposes hydrogen peroxide into water and oxygen; serves to protect cells from the toxic effects of hydrogen peroxide; hydroperoxidase II complement(1531577..1533838) Shigella flexneri 5 str. 8401 4207608 YP_688980.1 CDS SFV_1489 NC_008258.1 1534021 1534284 D cell division modulator 1534021..1534284 Shigella flexneri 5 str. 8401 4207609 YP_688981.1 CDS SFV_1493 NC_008258.1 1536903 1537493 R Code: R; COG: COG1988; hypothetical protein complement(1536903..1537493) Shigella flexneri 5 str. 8401 4207612 YP_688982.1 CDS yniC NC_008258.1 1537656 1538324 R YniC; catalyzes the dephosphorylation of 2-deoxyglucose 6-phosphate, mannose 6-phosphate and p-nitrophenyl phosphate; 2-deoxyglucose-6-phosphatase complement(1537656..1538324) Shigella flexneri 5 str. 8401 4207613 YP_688983.1 CDS SFV_1495 NC_008258.1 1538471 1539007 D hypothetical protein 1538471..1539007 Shigella flexneri 5 str. 8401 4207614 YP_688984.1 CDS SFV_1496 NC_008258.1 1539048 1539908 R Code: G; COG: COG3001; hypothetical protein complement(1539048..1539908) Shigella flexneri 5 str. 8401 4207615 YP_688985.1 CDS SFV_1497 NC_008258.1 1540014 1540304 R hypothetical protein complement(1540014..1540304) Shigella flexneri 5 str. 8401 4207616 YP_688986.1 CDS pfkB NC_008258.1 1540405 1541334 R Code: G; COG: COG1105; 6-phosphofructokinase complement(1540405..1541334) Shigella flexneri 5 str. 8401 4207617 YP_688987.1 CDS SFV_1499 NC_008258.1 1541669 1542379 D Code: M; COG: COG3137; hypothetical protein 1541669..1542379 Shigella flexneri 5 str. 8401 4207618 YP_688988.1 CDS SFV_1500 NC_008258.1 1542432 1542650 R hypothetical protein complement(1542432..1542650) Shigella flexneri 5 str. 8401 4207619 YP_688989.1 CDS insB NC_008258.1 1543366 1543869 R Code: L; COG: COG1662; IS1 ORF2 complement(1543366..1543869) Shigella flexneri 5 str. 8401 4207620 YP_688990.1 CDS SFV_1502 NC_008258.1 1543944 1544162 D IS1 encoded protein 1543944..1544162 Shigella flexneri 5 str. 8401 4207621 YP_688991.1 CDS thrS NC_008258.1 1545022 1546950 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 1545022..1546950 Shigella flexneri 5 str. 8401 4207623 YP_688992.1 CDS infC NC_008258.1 1547062 1547496 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 1547062..1547496 Shigella flexneri 5 str. 8401 4207832 YP_688993.1 CDS rpmI NC_008258.1 1547578 1547790 D Code: J; COG: COG0291; 50S ribosomal protein L35 1547578..1547790 Shigella flexneri 5 str. 8401 4207833 YP_688994.1 CDS rplT NC_008258.1 1547843 1548199 D binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit; 50S ribosomal protein L20 1547843..1548199 Shigella flexneri 5 str. 8401 4207834 YP_688995.1 CDS pheM NC_008258.1 1548326 1548460 D phenylalanyl-tRNA synthetase (pheST) operon leader peptide 1548326..1548460 Shigella flexneri 5 str. 8401 4207835 YP_688996.1 CDS pheS NC_008258.1 1548649 1549632 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 1548649..1549632 Shigella flexneri 5 str. 8401 4207836 YP_688997.1 CDS pheT NC_008258.1 1549647 1552034 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 1549647..1552034 Shigella flexneri 5 str. 8401 4207837 YP_688998.1 CDS ihfA NC_008258.1 1552039 1552338 D 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 1552039..1552338 Shigella flexneri 5 str. 8401 4207838 YP_688999.1 CDS btuC NC_008258.1 1552439 1553419 D with BtuD and BtuF transports vitamin B12 into the cell; vtamin B12-transporter permease 1552439..1553419 Shigella flexneri 5 str. 8401 4207839 YP_689000.1 CDS btuE NC_008258.1 1553482 1554033 D similar to glutathione peroxidase; member of the btuCED operon which is required for vitamin B12 transport across the inner membrane; glutathione peroxidase 1553482..1554033 Shigella flexneri 5 str. 8401 4207840 YP_689001.1 CDS btuD NC_008258.1 1554033 1554782 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 1554033..1554782 Shigella flexneri 5 str. 8401 4207841 YP_689002.1 CDS nlpC NC_008258.1 1554860 1555324 D Code: M; COG: COG0791; lipoprotein 1554860..1555324 Shigella flexneri 5 str. 8401 4207842 YP_689003.1 CDS SFV_1516 NC_008258.1 1555475 1556821 R Code: L; COG: COG3385; IS4 orf complement(1555475..1556821) Shigella flexneri 5 str. 8401 4207843 YP_689004.1 CDS SFV_1517 NC_008258.1 1557009 1557722 D Code: T; COG: COG2200; hypothetical protein 1557009..1557722 Shigella flexneri 5 str. 8401 4207844 YP_689005.1 CDS SFV_1518 NC_008258.1 1557732 1559222 D Code: S; COG: COG0397; hypothetical protein 1557732..1559222 Shigella flexneri 5 str. 8401 4207845 YP_689006.1 CDS ydiE NC_008258.1 1559226 1559444 R Code: P; COG: COG4256; hypothetical protein complement(1559226..1559444) Shigella flexneri 5 str. 8401 4207846 YP_689007.1 CDS aroH NC_008258.1 1559549 1560595 R 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(1559549..1560595) Shigella flexneri 5 str. 8401 4207847 YP_689008.1 CDS ydiA NC_008258.1 1560752 1561585 R Code: S; COG: COG1806; hypothetical protein complement(1560752..1561585) Shigella flexneri 5 str. 8401 4207848 YP_689009.1 CDS ppsA NC_008258.1 1561917 1564295 D catalyzes the formation of phosphoenolpyruvate from pyruvate; phosphoenolpyruvate synthase 1561917..1564295 Shigella flexneri 5 str. 8401 4207849 YP_689010.1 CDS ydiD NC_008258.1 1564352 1565998 R acts in anaerobic beta-oxidation of fatty acids; possible ligase/synthase involved in anaerobic growth on fatty acids; short chain acyl-CoA synthetase complement(1564352..1565998) Shigella flexneri 5 str. 8401 4207850 YP_689011.1 CDS ydiT NC_008258.1 1566055 1566348 R Code: C; COG: COG2440; hypothetical protein complement(1566055..1566348) Shigella flexneri 5 str. 8401 4207889 YP_689012.1 CDS ydiS NC_008258.1 1566345 1567634 R Code: C; COG: COG0644; hypothetical protein complement(1566345..1567634) Shigella flexneri 5 str. 8401 4207890 YP_689013.1 CDS ydiR NC_008258.1 1567690 1568628 R May play a role in a redox process; electron transfer flavoprotein subunit YdiR complement(1567690..1568628) Shigella flexneri 5 str. 8401 4207891 YP_689014.1 CDS ydiQ NC_008258.1 1568648 1569412 R YdiO, YdiQ, YdiR, YdiS, and YdiT may play a role in electron transport between the anaerobic fatty acid oxidation pathway and the respiratory chain; electron transfer flavoprotein YdiQ complement(1568648..1569412) Shigella flexneri 5 str. 8401 4207892 YP_689015.1 CDS SFV_1528 NC_008258.1 1569734 1570234 D AraC family transcriptional regulator 1569734..1570234 Shigella flexneri 5 str. 8401 4207893 YP_689016.1 CDS SFV_1529 NC_008258.1 1570202 1570387 R IS1 encoded protein complement(1570202..1570387) Shigella flexneri 5 str. 8401 4207894 YP_689017.1 CDS insB NC_008258.1 1570462 1570965 D Code: L; COG: COG1662; IS1 ORF2 1570462..1570965 Shigella flexneri 5 str. 8401 4207895 YP_689018.1 CDS SFV_1531 NC_008258.1 1571528 1572289 R regulates the cellular response to acid resistance; transcriptional regulator YdeO complement(1571528..1572289) Shigella flexneri 5 str. 8401 4207896 YP_689019.1 CDS SFV_1532 NC_008258.1 1572808 1575087 R 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; oxidoreductase complement(1572808..1575087) Shigella flexneri 5 str. 8401 4207897 YP_689020.1 CDS SFV_1533 NC_008258.1 1575421 1576158 R fimbrial-like adhesin protein complement(1575421..1576158) Shigella flexneri 5 str. 8401 4207898 YP_689021.1 CDS SFV_1534 NC_008258.1 1576130 1576345 R IS1 encoded protein complement(1576130..1576345) Shigella flexneri 5 str. 8401 4207899 YP_689022.1 CDS insB NC_008258.1 1576420 1576923 D Code: L; COG: COG1662; IS1 ORF2 1576420..1576923 Shigella flexneri 5 str. 8401 4207900 YP_689023.1 CDS SFV_1536 NC_008258.1 1577106 1577819 D Code: L; COG: COG2801; IS600 ORF2 1577106..1577819 Shigella flexneri 5 str. 8401 4207901 YP_689024.1 CDS SFV_1537 NC_008258.1 1578331 1578534 R hypothetical protein complement(1578331..1578534) Shigella flexneri 5 str. 8401 4207902 YP_689025.1 CDS SFV_1541 NC_008258.1 1581259 1581615 R endonuclease of cryptic prophage complement(1581259..1581615) Shigella flexneri 5 str. 8401 4207906 YP_689026.1 CDS SFV_1542 NC_008258.1 1581941 1582678 R hypothetical protein complement(1581941..1582678) Shigella flexneri 5 str. 8401 4207959 YP_689027.1 CDS SFV_1543 NC_008258.1 1583025 1583276 R hypothetical protein complement(1583025..1583276) Shigella flexneri 5 str. 8401 4207960 YP_689028.1 CDS relB NC_008258.1 1584008 1584247 R Qin prophage; bifunctional antitoxin of the RelE-RelB toxin-antitoxin system/transcriptional repressor; bifunctional antitoxin/transcriptional repressor RelB complement(1584008..1584247) Shigella flexneri 5 str. 8401 4207961 YP_689029.1 CDS SFV_1545 NC_008258.1 1584574 1585287 R Code: L; COG: COG2801; IS600 ORF2 complement(1584574..1585287) Shigella flexneri 5 str. 8401 4207962 YP_689030.1 CDS SFV_1546 NC_008258.1 1585428 1585730 R Code: L; COG: COG2963; IS600 ORF1 complement(1585428..1585730) Shigella flexneri 5 str. 8401 4207963 YP_689031.1 CDS SFV_1547 NC_008258.1 1585807 1586811 D Code: GEPR; COG: COG0477; transport protein 1585807..1586811 Shigella flexneri 5 str. 8401 4207964 YP_689032.1 CDS ydfI NC_008258.1 1586900 1588360 D Code: G; COG: COG0246; oxidoreductase 1586900..1588360 Shigella flexneri 5 str. 8401 4207965 YP_689033.1 CDS SFV_1549 NC_008258.1 1588396 1588599 R hypothetical protein complement(1588396..1588599) Shigella flexneri 5 str. 8401 4207966 YP_689034.1 CDS ydfH NC_008258.1 1588777 1589415 R Code: K; COG: COG1802; hypothetical protein complement(1588777..1589415) Shigella flexneri 5 str. 8401 4207967 YP_689035.1 CDS ydfG NC_008258.1 1589552 1590298 R 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 complement(1589552..1590298) Shigella flexneri 5 str. 8401 4207968 YP_689036.1 CDS dcp NC_008258.1 1590435 1592480 D Code: E; COG: COG0339; dipeptidyl carboxypeptidase II 1590435..1592480 Shigella flexneri 5 str. 8401 4207969 YP_689037.1 CDS ydeJ NC_008258.1 1592525 1593043 R Code: R; COG: COG1546; competence damage-inducible protein A complement(1592525..1593043) Shigella flexneri 5 str. 8401 4207970 YP_689038.1 CDS ydeI NC_008258.1 1593319 1593552 D hypothetical protein 1593319..1593552 Shigella flexneri 5 str. 8401 4207971 YP_689039.1 CDS SFV_1555 NC_008258.1 1593786 1593911 D IS600 ORF1 1593786..1593911 Shigella flexneri 5 str. 8401 4207972 YP_689040.1 CDS SFV_1556 NC_008258.1 1594052 1594765 D Code: L; COG: COG2801; IS600 ORF2 1594052..1594765 Shigella flexneri 5 str. 8401 4207973 YP_689041.1 CDS SFV_1557 NC_008258.1 1595939 1596910 R oxidoreductase, major subunit complement(1595939..1596910) Shigella flexneri 5 str. 8401 4207974 YP_689042.1 CDS SFV_1558 NC_008258.1 1597258 1597605 R hypothetical protein complement(1597258..1597605) Shigella flexneri 5 str. 8401 4207975 YP_689043.1 CDS ynfC NC_008258.1 1597635 1598381 D hypothetical protein 1597635..1598381 Shigella flexneri 5 str. 8401 4207976 YP_689044.1 CDS SFV_1561 NC_008258.1 1598979 1599320 R hypothetical protein complement(1598979..1599320) Shigella flexneri 5 str. 8401 4208016 YP_689045.1 CDS SFV_1562 NC_008258.1 1599446 1599781 D Code: S; COG: COG1742; hypothetical protein 1599446..1599781 Shigella flexneri 5 str. 8401 4208017 YP_689046.1 CDS rspA NC_008258.1 1599987 1601201 D Code: MR; COG: COG4948; starvation sensing protein 1599987..1601201 Shigella flexneri 5 str. 8401 4208018 YP_689047.1 CDS SFV_1564 NC_008258.1 1601278 1601556 D Code: L; COG: COG2963; ISEhe3 orfA 1601278..1601556 Shigella flexneri 5 str. 8401 4208019 YP_689048.2 CDS SFV_1565 NC_008258.1 1601978 1602883 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(1601978..1602883) Shigella flexneri 5 str. 8401 4208020 YP_689049.1 CDS SFV_1566 NC_008258.1 1602841 1603026 R IS2 orf1 complement(1602841..1603026) Shigella flexneri 5 str. 8401 4208021 YP_689050.1 CDS ydeW NC_008258.1 1603315 1604268 R Code: K; COG: COG2390; sorC family transcriptional regulator complement(1603315..1604268) Shigella flexneri 5 str. 8401 4208022 YP_689051.1 CDS SFV_1568 NC_008258.1 1604517 1606052 D Code: G; COG: COG1129; ABC transporter ATP-binding protein 1604517..1606052 Shigella flexneri 5 str. 8401 4208023 YP_689052.1 CDS ydeY NC_008258.1 1606046 1607074 D Code: G; COG: COG1172; transport system permease 1606046..1607074 Shigella flexneri 5 str. 8401 4208024 YP_689053.1 CDS ydeZ NC_008258.1 1607074 1608066 D Code: G; COG: COG1172; transport system permease 1607074..1608066 Shigella flexneri 5 str. 8401 4208025 YP_689054.1 CDS SFV_1572 NC_008258.1 1609316 1609681 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 1609316..1609681 Shigella flexneri 5 str. 8401 4208027 YP_689055.2 CDS SFV_1573 NC_008258.1 1609639 1610544 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 1609639..1610544 Shigella flexneri 5 str. 8401 4208028 YP_689056.1 CDS yneB NC_008258.1 1610569 1611339 D Code: G; COG: COG1830; aldolase 1610569..1611339 Shigella flexneri 5 str. 8401 4208029 YP_689057.1 CDS SFV_1575 NC_008258.1 1611363 1611653 D Code: S; COG: COG1359; autoinducer-2 (AI-2) modifying protein LsrG 1611363..1611653 Shigella flexneri 5 str. 8401 4208030 YP_689058.1 CDS SFV_1576 NC_008258.1 1611693 1612451 D catalyzes the formation of (E)-3-(methoxycarbonyl)pent-2-enedioate and S-adenosyl-L-homocysteine from S-adenosyl-L-methionine and trans-aconitate; trans-aconitate 2-methyltransferase 1611693..1612451 Shigella flexneri 5 str. 8401 4208031 YP_689059.1 CDS SFV_1577 NC_008258.1 1612455 1613420 R Code: S; COG: COG3781; hypothetical protein complement(1612455..1613420) Shigella flexneri 5 str. 8401 4208032 YP_689060.1 CDS SFV_1578 NC_008258.1 1613768 1614688 D IS1294 orf 1613768..1614688 Shigella flexneri 5 str. 8401 4208033 YP_689061.1 CDS SFV_1579 NC_008258.1 1614701 1614835 D IS1294 orf 1614701..1614835 Shigella flexneri 5 str. 8401 4208034 YP_689062.1 CDS uxaB NC_008258.1 1615263 1616714 R catalyzes the formation of D-tagaturonate from D-altronate; altronate oxidoreductase complement(1615263..1616714) Shigella flexneri 5 str. 8401 4208035 YP_689063.1 CDS SFV_1581 NC_008258.1 1616941 1618359 R hypothetical protein complement(1616941..1618359) Shigella flexneri 5 str. 8401 4208036 YP_689064.1 CDS SFV_1582 NC_008258.1 1618498 1618857 R hypothetical protein complement(1618498..1618857) Shigella flexneri 5 str. 8401 4208037 YP_689065.1 CDS yneH NC_008258.1 1618886 1619680 R Code: E; COG: COG2066; glutaminase complement(1618886..1619680) Shigella flexneri 5 str. 8401 4208038 YP_689066.1 CDS SFV_1585 NC_008258.1 1620742 1620924 R IS1 encoded protein complement(1620742..1620924) Shigella flexneri 5 str. 8401 4208040 YP_689067.1 CDS insB NC_008258.1 1620999 1621502 D Code: L; COG: COG1662; IS1 ORF2 1620999..1621502 Shigella flexneri 5 str. 8401 4208041 YP_689068.1 CDS SFV_1587 NC_008258.1 1621572 1622687 D hypothetical protein 1621572..1622687 Shigella flexneri 5 str. 8401 4208042 YP_689069.1 CDS ydeA NC_008258.1 1622837 1624027 D Code: G; COG: COG2814; sugar efflux transporter 1622837..1624027 Shigella flexneri 5 str. 8401 4208043 YP_689070.1 CDS ydeB NC_008258.1 1624052 1624717 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(1624052..1624717) Shigella flexneri 5 str. 8401 4208044 YP_689071.1 CDS marR NC_008258.1 1624929 1625363 D Repressor of the marRAB operon which is involved in the activation of both antibiotic resistance and oxidative stress genes; DNA-binding transcriptional repressor MarR 1624929..1625363 Shigella flexneri 5 str. 8401 4208045 YP_689072.2 CDS marA NC_008258.1 1625383 1625766 D transcriptional activator of genes involved in the multiple antibiotic resistance (Mar) phenotype; also activates sodA, zwf and micF; DNA-binding transcriptional activator MarA 1625383..1625766 Shigella flexneri 5 str. 8401 4208046 YP_689073.1 CDS marB NC_008258.1 1625798 1626016 D hypothetical protein 1625798..1626016 Shigella flexneri 5 str. 8401 4208047 YP_689074.1 CDS ydeD NC_008258.1 1626047 1626946 R Code: GER; COG: COG0697; O-acetylserine/cysteine export protein complement(1626047..1626946) Shigella flexneri 5 str. 8401 4208048 YP_689075.1 CDS ydeF NC_008258.1 1627210 1628328 D Code: GEPR; COG: COG0477; transport protein 1627210..1628328 Shigella flexneri 5 str. 8401 4208049 YP_689076.1 CDS SFV_1595 NC_008258.1 1628799 1629512 R Code: L; COG: COG2801; IS600 ORF2 complement(1628799..1629512) Shigella flexneri 5 str. 8401 4208050 YP_689077.1 CDS SFV_1596 NC_008258.1 1629653 1629778 R IS600 ORF1 complement(1629653..1629778) Shigella flexneri 5 str. 8401 4208051 YP_689078.1 CDS SFV_1597 NC_008258.1 1630017 1630577 R hypothetical protein complement(1630017..1630577) Shigella flexneri 5 str. 8401 4208052 YP_689079.1 CDS SFV_1598 NC_008258.1 1630728 1631402 D ISSfl4 ORF1 1630728..1631402 Shigella flexneri 5 str. 8401 4208053 YP_689080.1 CDS SFV_1599 NC_008258.1 1631476 1631802 D Code: L; COG: COG2963; IS629 ORF1 1631476..1631802 Shigella flexneri 5 str. 8401 4208054 YP_689081.1 CDS SFV_1600 NC_008258.1 1632038 1632685 D Code: L; COG: COG2801; IS629 ORF2 1632038..1632685 Shigella flexneri 5 str. 8401 4208110 YP_689082.1 CDS SFV_1602 NC_008258.1 1632725 1633525 R integrase complement(1632725..1633525) Shigella flexneri 5 str. 8401 4208112 YP_689083.1 CDS SFV_1601 NC_008258.1 1633508 1634617 D oxidoreductase, major subunit 1633508..1634617 Shigella flexneri 5 str. 8401 4208111 YP_689084.1 CDS SFV_1604 NC_008258.1 1636727 1637344 D Code: C; COG: COG0437; oxidoreductase, Fe-S subunit 1636727..1637344 Shigella flexneri 5 str. 8401 4208114 YP_689085.1 CDS SFV_1605 NC_008258.1 1637346 1638200 D Code: R; COG: COG3302; DMSO reductase anchor subunit 1637346..1638200 Shigella flexneri 5 str. 8401 4208115 YP_689086.1 CDS SFV_1607 NC_008258.1 1638992 1640308 D Code: P; COG: COG0038; voltage-gated ClC-type chloride channel ClcB 1638992..1640308 Shigella flexneri 5 str. 8401 4208117 YP_689087.1 CDS SFV_1608 NC_008258.1 1640261 1640956 R DTB synthetase; dethiobiotin synthase; involved in production of dethiobiotin from ATP and 7,8-diaminononanoate and carbon dioxide; contains magnesium; dithiobiotin synthetase complement(1640261..1640956) Shigella flexneri 5 str. 8401 4208118 YP_689088.1 CDS mlc NC_008258.1 1641081 1642301 R Code: KG; COG: COG1940; NAGC-like transcriptional regulator complement(1641081..1642301) Shigella flexneri 5 str. 8401 4208119 YP_689089.1 CDS ynfL NC_008258.1 1642436 1643338 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(1642436..1643338) Shigella flexneri 5 str. 8401 4208120 YP_689090.1 CDS asr NC_008258.1 1645095 1645430 D required for growth and survival under moderately acid conditions; acid shock protein 1645095..1645430 Shigella flexneri 5 str. 8401 4208122 YP_689091.1 CDS SFV_1613 NC_008258.1 1645706 1646527 D Code: E; COG: COG3591; hypothetical protein 1645706..1646527 Shigella flexneri 5 str. 8401 4208123 YP_689092.1 CDS SFV_1614 NC_008258.1 1646566 1646895 R with MdtJ is involved in resistance to deoxycholate, nalidixic acid, fosfomycin, and SDS; multidrug efflux system protein MdtI complement(1646566..1646895) Shigella flexneri 5 str. 8401 4208124 YP_689093.1 CDS SFV_1615 NC_008258.1 1646882 1647247 R with MdtI is involved in resistance to deoxycholate , nalidixic acid, fosfomycin, and SDS; multidrug efflux system protein MdtJ complement(1646882..1647247) Shigella flexneri 5 str. 8401 4208125 YP_689094.1 CDS tqsA NC_008258.1 1647658 1648692 D 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; transport protein 1647658..1648692 Shigella flexneri 5 str. 8401 4208126 YP_689095.1 CDS pntB NC_008258.1 1648717 1650105 R 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 complement(1648717..1650105) Shigella flexneri 5 str. 8401 4208127 YP_689096.1 CDS pntA NC_008258.1 1650116 1651663 R 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 complement(1650116..1651663) Shigella flexneri 5 str. 8401 4208128 YP_689097.1 CDS SFV_1619 NC_008258.1 1652172 1653116 D hypothetical protein 1652172..1653116 Shigella flexneri 5 str. 8401 4208129 YP_689098.1 CDS SFV_1620 NC_008258.1 1653302 1654684 D Code: E; COG: COG0531; arginine/ornithine antiporter 1653302..1654684 Shigella flexneri 5 str. 8401 4210786 YP_689099.1 CDS ydgB NC_008258.1 1654721 1655443 D Code: IQR; COG: COG1028; short chain dehydrogenase 1654721..1655443 Shigella flexneri 5 str. 8401 4210787 YP_689100.1 CDS ydgC NC_008258.1 1655440 1655775 R Code: R; COG: COG3136; hypothetical protein complement(1655440..1655775) Shigella flexneri 5 str. 8401 4210788 YP_689101.1 CDS rstA NC_008258.1 1655844 1656647 D response regulator in two-component regulatory system with RstB; DNA-binding transcriptional regulator RstA 1655844..1656647 Shigella flexneri 5 str. 8401 4210789 YP_689102.1 CDS SFV_1624 NC_008258.1 1656872 1658191 D Code: R; COG: COG1823; transporter 1656872..1658191 Shigella flexneri 5 str. 8401 4210790 YP_689103.1 CDS rstB NC_008258.1 1658370 1659671 D Code: T; COG: COG0642; sensor protein RstB 1658370..1659671 Shigella flexneri 5 str. 8401 4210791 YP_689104.1 CDS tus NC_008258.1 1659747 1660676 D binds to DNA replication terminator sequences to prevent passage of replication forks; DNA replication terminus site-binding protein 1659747..1660676 Shigella flexneri 5 str. 8401 4210792 YP_689105.1 CDS fumC NC_008258.1 1660673 1662076 R 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 complement(1660673..1662076) Shigella flexneri 5 str. 8401 4210793 YP_689106.1 CDS fumA NC_008258.1 1662219 1663865 R Code: C; COG: COG1951; fumarate hydratase class I, aerobic complement(1662219..1663865) Shigella flexneri 5 str. 8401 4210794 YP_689107.1 CDS manA NC_008258.1 1664064 1665239 D Code: G; COG: COG1482; mannose-6-phosphate isomerase 1664064..1665239 Shigella flexneri 5 str. 8401 4210795 YP_689108.1 CDS ydgA NC_008258.1 1665340 1666848 D Code: S; COG: COG5339; hypothetical protein 1665340..1666848 Shigella flexneri 5 str. 8401 4210796 YP_689109.1 CDS uidC NC_008258.1 1667168 1668340 R membrane-associated protein complement(1667168..1668340) Shigella flexneri 5 str. 8401 4210797 YP_689110.1 CDS uidA NC_008258.1 1669749 1671560 R Code: G; COG: COG3250; beta-D-glucuronidase complement(1669749..1671560) Shigella flexneri 5 str. 8401 4210799 YP_689111.1 CDS uidR NC_008258.1 1671948 1672538 R Code: K; COG: COG1309; repressor for uid operon complement(1671948..1672538) Shigella flexneri 5 str. 8401 4210800 YP_689112.1 CDS insB NC_008258.1 1672943 1673446 R Code: L; COG: COG1662; IS1 ORF2 complement(1672943..1673446) Shigella flexneri 5 str. 8401 4210801 YP_689113.1 CDS malI NC_008258.1 1674423 1675451 R regulates malXY which are involved in maltose-glucose transport; DNA-binding transcriptional repressor MalI complement(1674423..1675451) Shigella flexneri 5 str. 8401 4210803 YP_689114.1 CDS malX NC_008258.1 1675626 1677218 D 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; bifunctional PTS system maltose and glucose-specific transporter subunits IICB 1675626..1677218 Shigella flexneri 5 str. 8401 4210804 YP_689115.1 CDS malY NC_008258.1 1677249 1678400 D Code: E; COG: COG1168; cystathionine beta-lyase 1677249..1678400 Shigella flexneri 5 str. 8401 4209307 YP_689116.1 CDS add NC_008258.1 1678504 1679505 D catalyzes the formation of inosine from adenosine; adenosine deaminase 1678504..1679505 Shigella flexneri 5 str. 8401 4209308 YP_689117.1 CDS SFV_1641 NC_008258.1 1679541 1680515 R Code: R; COG: COG0673; oxidoreductase complement(1679541..1680515) Shigella flexneri 5 str. 8401 4209309 YP_689118.1 CDS SFV_1642 NC_008258.1 1681156 1681371 D 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 1681156..1681371 Shigella flexneri 5 str. 8401 4209310 YP_689119.1 CDS SFV_1643 NC_008258.1 1681457 1681897 D hypothetical protein 1681457..1681897 Shigella flexneri 5 str. 8401 4209311 YP_689120.1 CDS SFV_1644 NC_008258.1 1681974 1682555 D Code: C; COG: COG4657; Na(+)-translocating NADH-quinone reductase subunit E 1681974..1682555 Shigella flexneri 5 str. 8401 4209312 YP_689121.1 CDS SFV_1645 NC_008258.1 1682555 1683133 D part of membrane-bound complex thought to be involved in electron transport to nitrogen; electron transport complex protein RnfB 1682555..1683133 Shigella flexneri 5 str. 8401 4209313 YP_689122.1 CDS SFV_1646 NC_008258.1 1683126 1685348 D part of membrane-bound complex thought to be involved in electron transport to nitrogen; electron transport complex protein RnfC 1683126..1685348 Shigella flexneri 5 str. 8401 4209314 YP_689123.1 CDS rnfD NC_008258.1 1685349 1686407 D 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 1685349..1686407 Shigella flexneri 5 str. 8401 4209315 YP_689124.1 CDS SFV_1648 NC_008258.1 1686411 1687031 D part of membrane-bound complex hought to be involved in electron transport to nitrogen; electron transport complex protein RnfG 1686411..1687031 Shigella flexneri 5 str. 8401 4209316 YP_689125.1 CDS ydgQ NC_008258.1 1687035 1687730 D 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 RsxE subunit 1687035..1687730 Shigella flexneri 5 str. 8401 4209317 YP_689126.1 CDS nth NC_008258.1 1687730 1688365 D 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 1687730..1688365 Shigella flexneri 5 str. 8401 4209318 YP_689127.1 CDS tppB NC_008258.1 1688976 1690478 D 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 1688976..1690478 Shigella flexneri 5 str. 8401 4209319 YP_689128.1 CDS gst NC_008258.1 1690583 1691188 D Code: O; COG: COG0625; glutathionine S-transferase 1690583..1691188 Shigella flexneri 5 str. 8401 4209320 YP_689129.1 CDS pdxY NC_008258.1 1691232 1692092 R catalyzes the formation of pyridoxal 5'-phosphate from pyridoxal; pyridoxamine kinase complement(1691232..1692092) Shigella flexneri 5 str. 8401 4209321 YP_689130.1 CDS tyrS NC_008258.1 1692154 1693428 R catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr); tyrosyl-tRNA synthetase complement(1692154..1693428) Shigella flexneri 5 str. 8401 4209322 YP_689131.1 CDS pdxH NC_008258.1 1693557 1694213 R catalyzes the formation of pyridoxal 5'-phosphate from pyridoxamine 5'-phosphate; pyridoxamine 5'-phosphate oxidase complement(1693557..1694213) Shigella flexneri 5 str. 8401 4209323 YP_689132.1 CDS ydhA NC_008258.1 1694272 1694520 R Code: R; COG: COG3895; hypothetical protein complement(1694272..1694520) Shigella flexneri 5 str. 8401 4209324 YP_689133.1 CDS SFV_1657 NC_008258.1 1694542 1695381 R Code: L; COG: COG2801; IS2 ORF2 complement(1694542..1695381) Shigella flexneri 5 str. 8401 4209325 YP_689134.1 CDS SFV_1658 NC_008258.1 1695405 1695815 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(1695405..1695815) Shigella flexneri 5 str. 8401 4209326 YP_689135.1 CDS anmK NC_008258.1 1696035 1697144 R 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 complement(1696035..1697144) Shigella flexneri 5 str. 8401 4209136 YP_689136.1 CDS slyB NC_008258.1 1697418 1697885 D Code: M; COG: COG3133; outer membrane protein 1697418..1697885 Shigella flexneri 5 str. 8401 4209137 YP_689137.1 CDS slyA NC_008258.1 1697932 1698372 R Transcription regulator that can both activate or repress expression; transcriptional regulator SlyA complement(1697932..1698372) Shigella flexneri 5 str. 8401 4209138 YP_689138.1 CDS SFV_1662 NC_008258.1 1698576 1698803 D hypothetical protein 1698576..1698803 Shigella flexneri 5 str. 8401 4209139 YP_689139.1 CDS SFV_1663 NC_008258.1 1698797 1699663 D Code: V; COG: COG1566; hypothetical protein 1698797..1699663 Shigella flexneri 5 str. 8401 4209140 YP_689140.1 CDS SFV_1664 NC_008258.1 1699663 1699989 D hypothetical protein 1699663..1699989 Shigella flexneri 5 str. 8401 4209141 YP_689141.1 CDS SFV_1665 NC_008258.1 1700161 1701675 D Code: S; COG: COG1289; hypothetical protein 1700161..1701675 Shigella flexneri 5 str. 8401 4209142 YP_689142.1 CDS sodC NC_008258.1 1701676 1702197 R SodC; copper and zinc binding; converts superoxide radicals to hydrogen peroxide and water; superoxide dismutase complement(1701676..1702197) Shigella flexneri 5 str. 8401 4209143 YP_689143.1 CDS SFV_1667 NC_008258.1 1702278 1703174 R Code: R; COG: COG4989; hypothetical protein complement(1702278..1703174) Shigella flexneri 5 str. 8401 4209144 YP_689144.1 CDS SFV_1669 NC_008258.1 1703223 1703600 R hypothetical protein complement(1703223..1703600) Shigella flexneri 5 str. 8401 4209146 YP_689145.1 CDS SFV_1668 NC_008258.1 1703565 1704164 D Code: K; COG: COG1309; hypothetical protein 1703565..1704164 Shigella flexneri 5 str. 8401 4209145 YP_689146.1 CDS nemA NC_008258.1 1704201 1705298 D FMN-linked; catalyzes the formation of N-ethylsuccinimide from N-ethylmaleimide; N-ethylmaleimide reductase 1704201..1705298 Shigella flexneri 5 str. 8401 4209147 YP_689147.1 CDS gloA NC_008258.1 1705379 1705786 D Ni-dependent; catalyzes the formation of S-lactoylglutathione from methylglyoxal and glutathione; glyoxalase I 1705379..1705786 Shigella flexneri 5 str. 8401 4209148 YP_689148.1 CDS rnt NC_008258.1 1705889 1706536 D degrades tRNA; Responsible for the end-turnover of tRNA: specifically removes the terminal AMP residue from uncharged tRNA (tRNA-C-C-A); ribonuclease T 1705889..1706536 Shigella flexneri 5 str. 8401 4209149 YP_689149.1 CDS lhr NC_008258.1 1706668 1710045 D Code: R; COG: COG1201; ATP-dependent helicase superfamily protein 1706668..1710045 Shigella flexneri 5 str. 8401 4209150 YP_689150.1 CDS SFV_1674 NC_008258.1 1709990 1711087 D ATP-dependent helicase superfamily protein 1709990..1711087 Shigella flexneri 5 str. 8401 4209151 YP_689151.1 CDS SFV_1675 NC_008258.1 1711131 1712279 R Code: L; COG: COG0675; virulence protein complement(1711131..1712279) Shigella flexneri 5 str. 8401 4209152 YP_689152.1 CDS ydhD NC_008258.1 1712890 1713237 R Code: O; COG: COG0278; hypothetical protein complement(1712890..1713237) Shigella flexneri 5 str. 8401 4209153 YP_689153.1 CDS ydhO NC_008258.1 1713572 1714399 D Code: M; COG: COG0791; lipoprotein 1713572..1714399 Shigella flexneri 5 str. 8401 4209154 YP_689154.1 CDS sodB NC_008258.1 1714527 1715108 D SodB; iron binding; present under aerobic and anaerobic conditions; destroys free radicals; superoxide dismutase 1714527..1715108 Shigella flexneri 5 str. 8401 4208818 YP_689155.1 CDS SFV_1679 NC_008258.1 1715254 1716423 R Code: G; COG: COG2814; transport protein complement(1715254..1716423) Shigella flexneri 5 str. 8401 4208819 YP_689156.1 CDS purR NC_008258.1 1716977 1718002 D 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 1716977..1718002 Shigella flexneri 5 str. 8401 4208820 YP_689157.1 CDS ydhB NC_008258.1 1717999 1718931 R Code: K; COG: COG0583; DNA-binding transcriptional regulator complement(1717999..1718931) Shigella flexneri 5 str. 8401 4208821 YP_689158.1 CDS ydhC NC_008258.1 1719044 1720255 D uncharacterized member of the major facilitator superfamily (MFS); inner membrane transport protein YdhC 1719044..1720255 Shigella flexneri 5 str. 8401 4208822 YP_689159.1 CDS cfa NC_008258.1 1720546 1721694 D 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 1720546..1721694 Shigella flexneri 5 str. 8401 4208823 YP_689160.1 CDS ribE NC_008258.1 1721734 1722375 R catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine; riboflavin synthase subunit alpha complement(1721734..1722375) Shigella flexneri 5 str. 8401 4208824 YP_689161.1 CDS ydhE NC_008258.1 1722590 1723963 D NorM; MdtK; functions as a Na(+)/drug antiporter; inactivation in Vibrio cholerae results in susceptibility to fluoroquinolones; multidrug efflux protein 1722590..1723963 Shigella flexneri 5 str. 8401 4208825 YP_689162.1 CDS SFV_1686 NC_008258.1 1724004 1725260 R Code: MU; COG: COG3468; hypothetical protein complement(1724004..1725260) Shigella flexneri 5 str. 8401 4208826 YP_689163.1 CDS SFV_1689 NC_008258.1 1725833 1726138 D hypothetical protein 1725833..1726138 Shigella flexneri 5 str. 8401 4208829 YP_689164.1 CDS SFV_1690 NC_008258.1 1726264 1727868 D Code: S; COG: COG4529; hypothetical protein 1726264..1727868 Shigella flexneri 5 str. 8401 4208830 YP_689165.1 CDS SFV_1691 NC_008258.1 1727880 1728629 R hypothetical protein complement(1727880..1728629) Shigella flexneri 5 str. 8401 4208831 YP_689166.1 CDS ydhU NC_008258.1 1728681 1729466 R Code: C; COG: COG4117; hypothetical protein complement(1728681..1729466) Shigella flexneri 5 str. 8401 4208832 YP_689167.1 CDS SFV_1693 NC_008258.1 1729463 1730131 R Code: C; COG: COG0437; oxidoreductase, Fe-S subunit complement(1729463..1730131) Shigella flexneri 5 str. 8401 4208833 YP_689168.1 CDS SFV_1694 NC_008258.1 1730195 1730842 R hypothetical protein complement(1730195..1730842) Shigella flexneri 5 str. 8401 4208834 YP_689169.1 CDS SFV_1695 NC_008258.1 1730846 1732642 R Code: C; COG: COG2414; hypothetical protein complement(1730846..1732642) Shigella flexneri 5 str. 8401 4208835 YP_689170.1 CDS SFV_1696 NC_008258.1 1732968 1733594 R Code: C; COG: COG0437; hypothetical protein complement(1732968..1733594) Shigella flexneri 5 str. 8401 4208727 YP_689171.1 CDS SFV_1697 NC_008258.1 1734051 1734260 R hypothetical protein complement(1734051..1734260) Shigella flexneri 5 str. 8401 4208728 YP_689172.1 CDS insB NC_008258.1 1734541 1735044 D Code: L; COG: COG1662; IS1 ORF2 1734541..1735044 Shigella flexneri 5 str. 8401 4208729 YP_689173.1 CDS pykF NC_008258.1 1735377 1737005 D catalyzes the formation of phosphoenolpyruvate from pyruvate; pyruvate kinase 1735377..1737005 Shigella flexneri 5 str. 8401 4208730 YP_689174.1 CDS lpp NC_008258.1 1737317 1737553 D Code: M; COG: COG4238; murein lipoprotein 1737317..1737553 Shigella flexneri 5 str. 8401 4208731 YP_689175.1 CDS ynhG NC_008258.1 1737616 1738620 R Code: S; COG: COG1376; hypothetical protein complement(1737616..1738620) Shigella flexneri 5 str. 8401 4208732 YP_689176.1 CDS ynhA NC_008258.1 1738769 1739185 R Acts with SufS to catalyze the formation of L-alanine from L-cysteine; cysteine desufuration protein SufE complement(1738769..1739185) Shigella flexneri 5 str. 8401 4208733 YP_689177.1 CDS SFV_1703 NC_008258.1 1739198 1740418 R catalyzes the formation of L-alanine and selenide or sulfanylcysteine from selenocysteine or cysteine; bifunctional cysteine desulfurase/selenocysteine lyase complement(1739198..1740418) Shigella flexneri 5 str. 8401 4208734 YP_689178.1 CDS ynhC NC_008258.1 1740415 1741581 R with SufBC activates cysteine desulfurase SufS; cysteine desulfurase complement(1740415..1741581) Shigella flexneri 5 str. 8401 4208735 YP_689179.1 CDS sufC NC_008258.1 1741660 1742406 R 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 complement(1741660..1742406) Shigella flexneri 5 str. 8401 4208736 YP_689180.1 CDS ynhE NC_008258.1 1742416 1743903 R with SufCD activates cysteine desulfurase SufS; cysteine desulfurase complement(1742416..1743903) Shigella flexneri 5 str. 8401 4208737 YP_689181.1 CDS sufA NC_008258.1 1743912 1744280 R 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 complement(1743912..1744280) Shigella flexneri 5 str. 8401 4208738 YP_689182.1 CDS SFV_1708 NC_008258.1 1744828 1745097 R hypothetical protein complement(1744828..1745097) Shigella flexneri 5 str. 8401 4208739 YP_689183.1 CDS SFV_1709 NC_008258.1 1745116 1745526 R Code: Q; COG: COG2050; hypothetical protein complement(1745116..1745526) Shigella flexneri 5 str. 8401 4208740 YP_689184.1 CDS ydiJ NC_008258.1 1745523 1748579 R oxidase complement(1745523..1748579) Shigella flexneri 5 str. 8401 4208741 YP_689185.1 CDS SFV_1711 NC_008258.1 1748968 1750080 D YdiK; inner membrane protein; ydiK promoter presents a PurR sequence, suggesting that its expression is purine-regulated; unknown function; inner membrane protein 1748968..1750080 Shigella flexneri 5 str. 8401 4208742 YP_689186.1 CDS SFV_1712 NC_008258.1 1750481 1750864 D hypothetical protein 1750481..1750864 Shigella flexneri 5 str. 8401 4208743 YP_689187.1 CDS insB NC_008258.1 1752034 1752537 D Code: L; COG: COG1662; IS1 ORF2 1752034..1752537 Shigella flexneri 5 str. 8401 4208745 YP_689188.1 CDS SFV_1715 NC_008258.1 1753249 1754409 D Code: GEPR; COG: COG0477; amino acid/amine transport protein 1753249..1754409 Shigella flexneri 5 str. 8401 4208478 YP_689189.1 CDS SFV_1716 NC_008258.1 1754530 1754709 R IS1 encoded protein complement(1754530..1754709) Shigella flexneri 5 str. 8401 4208479 YP_689190.1 CDS insB NC_008258.1 1754784 1755287 D Code: L; COG: COG1662; IS1 ORF2 1754784..1755287 Shigella flexneri 5 str. 8401 4208480 YP_689191.1 CDS ydiB NC_008258.1 1755314 1756063 D Code: E; COG: COG0169; quinate/shikimate dehydrogenase 1755314..1756063 Shigella flexneri 5 str. 8401 4208481 YP_689192.1 CDS aroD NC_008258.1 1756094 1756852 D catalyzes the dehydration of 3-dehydroquinate to form 3-dehydroshikimate in aromatic amino acid biosynthesis; 3-dehydroquinate dehydratase 1756094..1756852 Shigella flexneri 5 str. 8401 4208482 YP_689193.1 CDS insB NC_008258.1 1756934 1757437 R Code: L; COG: COG1662; IS1 ORF2 complement(1756934..1757437) Shigella flexneri 5 str. 8401 4208483 YP_689194.1 CDS SFV_1721 NC_008258.1 1757512 1757739 D IS1 encoded protein 1757512..1757739 Shigella flexneri 5 str. 8401 4208484 YP_689195.1 CDS SFV_1722 NC_008258.1 1757742 1759232 D Code: P; COG: COG3119; sulfatase 1757742..1759232 Shigella flexneri 5 str. 8401 4208485 YP_689196.1 CDS SFV_1723 NC_008258.1 1759284 1760441 D Code: R; COG: COG0641; hypothetical protein 1759284..1760441 Shigella flexneri 5 str. 8401 4208486 YP_689197.1 CDS SFV_1725 NC_008258.1 1761931 1762167 R IS1 encoded protein complement(1761931..1762167) Shigella flexneri 5 str. 8401 4208488 YP_689198.1 CDS insB NC_008258.1 1762242 1762745 D Code: L; COG: COG1662; IS1 ORF2 1762242..1762745 Shigella flexneri 5 str. 8401 4208489 YP_689199.1 CDS yddB NC_008258.1 1763232 1765592 D hypothetical protein 1763232..1765592 Shigella flexneri 5 str. 8401 4208490 YP_689200.1 CDS insB NC_008258.1 1766895 1767398 D Code: L; COG: COG1662; IS1 ORF2 1766895..1767398 Shigella flexneri 5 str. 8401 4208492 YP_689201.1 CDS gadB NC_008258.1 1769570 1770970 D Code: E; COG: COG0076; glutamate decarboxylase isozyme 1769570..1770970 Shigella flexneri 5 str. 8401 4208493 YP_689202.1 CDS xasA NC_008258.1 1771126 1772661 D Code: E; COG: COG0531; acid sensitivity protein transporter 1771126..1772661 Shigella flexneri 5 str. 8401 4208494 YP_689203.1 CDS SFV_1732 NC_008258.1 1772792 1774111 D Code: S; COG: COG1649; hypothetical protein 1772792..1774111 Shigella flexneri 5 str. 8401 4208495 YP_689204.1 CDS SFV_1733 NC_008258.1 1774488 1775633 D hypothetical protein 1774488..1775633 Shigella flexneri 5 str. 8401 4208496 YP_689205.1 CDS SFV_1734 NC_008258.1 1775675 1776175 D Code: T; COG: COG2200; hypothetical protein 1775675..1776175 Shigella flexneri 5 str. 8401 4208497 YP_689206.1 CDS SFV_1735 NC_008258.1 1776433 1776834 D hypothetical protein 1776433..1776834 Shigella flexneri 5 str. 8401 4208402 YP_689207.1 CDS SFV_1736 NC_008258.1 1776779 1777675 D Code: EP; COG: COG1173; ATP-dependent peptide transporter membrane subunit 1776779..1777675 Shigella flexneri 5 str. 8401 4208403 YP_689208.1 CDS SFV_1737 NC_008258.1 1777672 1778658 D Code: EP; COG: COG0444; ABC transporter ATP-binding protein 1777672..1778658 Shigella flexneri 5 str. 8401 4208404 YP_689209.1 CDS SFV_1738 NC_008258.1 1778651 1779421 D Code: EP; COG: COG1124; ABC transporter ATP-binding protein 1778651..1779421 Shigella flexneri 5 str. 8401 4208405 YP_689210.1 CDS osmC NC_008258.1 1779633 1780064 R Code: O; COG: COG1764; osmotically inducible protein complement(1779633..1780064) Shigella flexneri 5 str. 8401 4208406 YP_689211.1 CDS insB NC_008258.1 1780237 1780740 R Code: L; COG: COG1662; IS1 ORF2 complement(1780237..1780740) Shigella flexneri 5 str. 8401 4208407 YP_689212.1 CDS SFV_1741 NC_008258.1 1780815 1781081 D IS1 encoded protein 1780815..1781081 Shigella flexneri 5 str. 8401 4208408 YP_689213.1 CDS sfcA NC_008258.1 1781122 1782819 D malic enzyme; oxaloacetate-decarboxylating; NAD-dependent; catalyzes the formation of pyruvate form malate; malate dehydrogenase 1781122..1782819 Shigella flexneri 5 str. 8401 4208409 YP_689214.1 CDS yddM NC_008258.1 1784047 1784409 D Code: R; COG: COG3093; hypothetical protein 1784047..1784409 Shigella flexneri 5 str. 8401 4208411 YP_689215.1 CDS fdnI NC_008258.1 1784637 1785290 R nitrate-inducible, cytochrome b556(fdn) component of formate dehydrogenase; formate dehydrogenase-N subunit gamma complement(1784637..1785290) Shigella flexneri 5 str. 8401 4208412 YP_689216.1 CDS fdnH NC_008258.1 1785283 1786167 R Code: C; COG: COG0437; formate dehydrogenase-N, nitrate-inducible, iron-sulfur subunit beta complement(1785283..1786167) Shigella flexneri 5 str. 8401 4208413 YP_689217.1 CDS fdnG NC_008258.1 1786180 1789227 R Code: C; COG: COG0243; formate dehydrogenase-N, nitrate-inducible subunit alpha complement(1786180..1789227) Shigella flexneri 5 str. 8401 4208414 YP_689218.1 CDS yddG NC_008258.1 1789516 1790340 D Code: GER; COG: COG0697; hypothetical protein 1789516..1790340 Shigella flexneri 5 str. 8401 4208415 YP_689219.1 CDS insB NC_008258.1 1790543 1791046 R Code: L; COG: COG1662; IS1 ORF2 complement(1790543..1791046) Shigella flexneri 5 str. 8401 4208416 YP_689220.1 CDS SFV_1750 NC_008258.1 1791121 1791309 D IS1 encoded protein 1791121..1791309 Shigella flexneri 5 str. 8401 4208417 YP_689221.1 CDS SFV_1751 NC_008258.1 1791372 1792472 D Code: M; COG: COG3203; outer membrane porin protein 1791372..1792472 Shigella flexneri 5 str. 8401 4208418 YP_689222.1 CDS SFV_1752 NC_008258.1 1792642 1793121 D Code: S; COG: COG4886; hypothetical protein 1792642..1793121 Shigella flexneri 5 str. 8401 4208419 YP_689223.1 CDS SFV_1753 NC_008258.1 1793231 1794220 D Code: S; COG: COG4886; glycoprotein 1793231..1794220 Shigella flexneri 5 str. 8401 4208420 YP_689224.1 CDS SFV_1754 NC_008258.1 1794394 1794627 R IS1 encoded protein complement(1794394..1794627) Shigella flexneri 5 str. 8401 4208322 YP_689225.1 CDS insB NC_008258.1 1794702 1795205 D Code: L; COG: COG1662; IS1 ORF2 1794702..1795205 Shigella flexneri 5 str. 8401 4208323 YP_689226.1 CDS narU NC_008258.1 1795663 1797051 D Code: P; COG: COG2223; nitrite extrusion protein 2 1795663..1797051 Shigella flexneri 5 str. 8401 4208324 YP_689227.1 CDS narZ NC_008258.1 1797133 1800873 D Code: C; COG: COG5013; cryptic nitrate reductase 2 subunit alpha 1797133..1800873 Shigella flexneri 5 str. 8401 4208325 YP_689228.1 CDS narY NC_008258.1 1800870 1801802 D cryptic nitrate reductase 2 subunit beta 1800870..1801802 Shigella flexneri 5 str. 8401 4208326 YP_689229.1 CDS SFV_1759 NC_008258.1 1801837 1802202 D IS91 ORF2 1801837..1802202 Shigella flexneri 5 str. 8401 4208327 YP_689230.1 CDS SFV_1760 NC_008258.1 1802316 1803389 D IS91 orf 1802316..1803389 Shigella flexneri 5 str. 8401 4208328 YP_689231.1 CDS SFV_1761 NC_008258.1 1803660 1804325 R Code: K; COG: COG1802; DNA-binding transcriptional regulator complement(1803660..1804325) Shigella flexneri 5 str. 8401 4208329 YP_689232.1 CDS yncB NC_008258.1 1804487 1805590 R Code: R; COG: COG2130; oxidoreductase complement(1804487..1805590) Shigella flexneri 5 str. 8401 4208330 YP_689233.2 CDS SFV_1763 NC_008258.1 1805720 1806625 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(1805720..1806625) Shigella flexneri 5 str. 8401 4208331 YP_689234.1 CDS SFV_1764 NC_008258.1 1806583 1806948 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(1806583..1806948) Shigella flexneri 5 str. 8401 4208332 YP_689235.1 CDS SFV_1766 NC_008258.1 1807423 1808070 D Code: S; COG: COG3238; hypothetical protein 1807423..1808070 Shigella flexneri 5 str. 8401 4208334 YP_689236.1 CDS SFV_1767 NC_008258.1 1808071 1808304 R hypothetical protein complement(1808071..1808304) Shigella flexneri 5 str. 8401 4208335 YP_689237.1 CDS SFV_1768 NC_008258.1 1808390 1808638 R hypothetical protein complement(1808390..1808638) Shigella flexneri 5 str. 8401 4208336 YP_689238.1 CDS SFV_1769 NC_008258.1 1809255 1810064 R acetyltransferase complement(1809255..1810064) Shigella flexneri 5 str. 8401 4208337 YP_689239.1 CDS SFV_1770 NC_008258.1 1810274 1811698 R catalyzes the formation of 4-aminobutanoate from 4-aminobutanal; involved in putrescine degradation; gamma-aminobutyraldehyde dehydrogenase complement(1810274..1811698) Shigella flexneri 5 str. 8401 4208338 YP_689240.1 CDS SFV_1771 NC_008258.1 1811720 1812514 R Code: E; COG: COG1177; transport system permease complement(1811720..1812514) Shigella flexneri 5 str. 8401 4208339 YP_689241.1 CDS SFV_1773 NC_008258.1 1813194 1814540 D IS91 orf 1813194..1814540 Shigella flexneri 5 str. 8401 4208341 YP_689242.1 CDS SFV_1774 NC_008258.1 1814629 1815561 R Code: L; COG: COG0675; virulence protein complement(1814629..1815561) Shigella flexneri 5 str. 8401 4208149 YP_689243.1 CDS SFV_1775 NC_008258.1 1816153 1816821 R hypothetical protein complement(1816153..1816821) Shigella flexneri 5 str. 8401 4208150 YP_689244.1 CDS tehB NC_008258.1 1817124 1817717 R with TehA confers resistance to tellurite; tellurite resistance protein TehB complement(1817124..1817717) Shigella flexneri 5 str. 8401 4208151 YP_689245.1 CDS tehA NC_008258.1 1817714 1818706 R Code: P; COG: COG1275; potassium-tellurite ethidium and proflavin transporter complement(1817714..1818706) Shigella flexneri 5 str. 8401 4208152 YP_689246.1 CDS SFV_1778 NC_008258.1 1818830 1819810 D hypothetical protein 1818830..1819810 Shigella flexneri 5 str. 8401 4208153 YP_689247.1 CDS rimL NC_008258.1 1819805 1820341 R Code: J; COG: COG1670; ribosomal-protein-L7/L12-serine acetyltransferase complement(1819805..1820341) Shigella flexneri 5 str. 8401 4208154 YP_689248.1 CDS ydcH NC_008258.1 1820404 1820628 R Code: S; COG: COG2841; hypothetical protein complement(1820404..1820628) Shigella flexneri 5 str. 8401 4208155 YP_689249.1 CDS mdoD NC_008258.1 1820768 1822393 R involved in the control of the structural glucose backbone of osmoregulated periplasmic glucans; glucan biosynthesis protein D complement(1820768..1822393) Shigella flexneri 5 str. 8401 4208156 YP_689250.1 CDS SFV_1782 NC_008258.1 1822648 1823991 R Code: S; COG: COG5383; hypothetical protein complement(1822648..1823991) Shigella flexneri 5 str. 8401 4208157 YP_689251.1 CDS SFV_1783 NC_008258.1 1824067 1825131 D Code: K; COG: COG0583; LysR family transcriptional regulator 1824067..1825131 Shigella flexneri 5 str. 8401 4208158 YP_689252.1 CDS trg NC_008258.1 1825169 1826809 R ribose sensor receptor; Code: NT; COG: COG0840; methyl-accepting chemotaxis protein III, ribose sensor receptor complement(1825169..1826809) Shigella flexneri 5 str. 8401 4208159 YP_689253.1 CDS SFV_1785 NC_008258.1 1827185 1827667 D Code: L; COG: COG2963; IS150 ORF1(ORF A) 1827185..1827667 Shigella flexneri 5 str. 8401 4208160 YP_689254.1 CDS SFV_1786 NC_008258.1 1827664 1828377 R Code: L; COG: COG2801; IS600 ORF2 complement(1827664..1828377) Shigella flexneri 5 str. 8401 4208161 YP_689255.1 CDS SFV_1787 NC_008258.1 1828518 1828820 R Code: L; COG: COG2963; IS600 ORF1 complement(1828518..1828820) Shigella flexneri 5 str. 8401 4208162 YP_689256.1 CDS ydcA NC_008258.1 1829416 1829589 R hypothetical protein complement(1829416..1829589) Shigella flexneri 5 str. 8401 4208163 YP_689257.2 CDS cybB NC_008258.1 1829834 1830364 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(1829834..1830364) Shigella flexneri 5 str. 8401 4208164 YP_689258.1 CDS gapC NC_008258.1 1830553 1831488 D Code: G; COG: COG0057; glyceraldehyde-3-phosphate dehydrogenase 1830553..1831488 Shigella flexneri 5 str. 8401 4208165 YP_689259.1 CDS aldA NC_008258.1 1831596 1833035 R NAD-linked; aldehyde dehydrogenase complement(1831596..1833035) Shigella flexneri 5 str. 8401 4208166 YP_689260.1 CDS SFV_1792 NC_008258.1 1833340 1833726 R hypothetical protein complement(1833340..1833726) Shigella flexneri 5 str. 8401 4208167 YP_689261.1 CDS SFV_1793 NC_008258.1 1833827 1834972 D Code: L; COG: COG2801; IS600 ORF2 1833827..1834972 Shigella flexneri 5 str. 8401 4207468 YP_689262.1 CDS hrpA NC_008258.1 1835173 1838928 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(1835173..1838928) Shigella flexneri 5 str. 8401 4207469 YP_689263.1 CDS acpD NC_008258.1 1839276 1839881 D FMN-dependent; requires NADH; catalyzes the cleavage of azo bond in aromatic azo compounds; azoreductase 1839276..1839881 Shigella flexneri 5 str. 8401 4207470 YP_689264.1 CDS SFV_1796 NC_008258.1 1840644 1840946 D Code: L; COG: COG2963; IS600 ORF1 1840644..1840946 Shigella flexneri 5 str. 8401 4207471 YP_689265.1 CDS SFV_1797 NC_008258.1 1841087 1841800 D Code: L; COG: COG2801; IS600 ORF2 1841087..1841800 Shigella flexneri 5 str. 8401 4207472 YP_689266.1 CDS SFV_1799 NC_008258.1 1842502 1844259 R hypothetical protein complement(1842502..1844259) Shigella flexneri 5 str. 8401 4207474 YP_689267.1 CDS SFV_1800 NC_008258.1 1844275 1844997 R Code: R; COG: COG4589; phosphatidate cytidiltransferase complement(1844275..1844997) Shigella flexneri 5 str. 8401 4207475 YP_689268.1 CDS SFV_1801 NC_008258.1 1845170 1845775 R Code: I; COG: COG0558; hypothetical protein complement(1845170..1845775) Shigella flexneri 5 str. 8401 4207476 YP_689269.1 CDS ydbD NC_008258.1 1845946 1848255 R hypothetical protein complement(1845946..1848255) Shigella flexneri 5 str. 8401 4207477 YP_689270.1 CDS insB NC_008258.1 1848369 1848872 D Code: L; COG: COG1662; IS1 ORF2 1848369..1848872 Shigella flexneri 5 str. 8401 4207478 YP_689271.1 CDS hslJ NC_008258.1 1848866 1849210 R Code: O; COG: COG3187; heat-inducible protein complement(1848866..1849210) Shigella flexneri 5 str. 8401 4207479 YP_689272.1 CDS ldhA NC_008258.1 1849309 1850298 R Code: CHR; COG: COG1052; D-lactate dehydrogenase complement(1849309..1850298) Shigella flexneri 5 str. 8401 4207480 YP_689273.1 CDS ydbH NC_008258.1 1850506 1853145 D hypothetical protein 1850506..1853145 Shigella flexneri 5 str. 8401 4207481 YP_689274.1 CDS ynbE NC_008258.1 1853142 1853327 D hypothetical protein 1853142..1853327 Shigella flexneri 5 str. 8401 4207482 YP_689275.1 CDS SFV_1808 NC_008258.1 1854053 1854232 R IS1 encoded protein complement(1854053..1854232) Shigella flexneri 5 str. 8401 4207483 YP_689276.1 CDS insB NC_008258.1 1854307 1854810 D Code: L; COG: COG1662; IS1 ORF2 1854307..1854810 Shigella flexneri 5 str. 8401 4207484 YP_689277.1 CDS ydbK NC_008258.1 1855483 1859007 D oxidoreductase, Fe-S subunit 1855483..1859007 Shigella flexneri 5 str. 8401 4207486 YP_689278.1 CDS ynaF NC_008258.1 1860572 1861078 D Code: T; COG: COG0589; filament protein 1860572..1861078 Shigella flexneri 5 str. 8401 4206705 YP_689279.1 CDS ydaO NC_008258.1 1861254 1862189 D TtcA; YdaO; catalyzes the thiolation of cytosine 32 in specific tRNAs; C32 tRNA thiolase 1861254..1862189 Shigella flexneri 5 str. 8401 4206706 YP_689280.1 CDS dbpA NC_008258.1 1862318 1863685 R exhibits an RNA-dependent ATPase activity, specifically stimulated by bacterial 23S rRNA; ATP-dependent RNA helicase DbpA complement(1862318..1863685) Shigella flexneri 5 str. 8401 4206707 YP_689281.1 CDS zntB NC_008258.1 1864163 1865146 R Code: P; COG: COG0598; zinc transporter complement(1864163..1865146) Shigella flexneri 5 str. 8401 4206708 YP_689282.1 CDS SFV_1817 NC_008258.1 1865401 1866633 D hypothetical protein 1865401..1866633 Shigella flexneri 5 str. 8401 4206709 YP_689283.1 CDS ydaL NC_008258.1 1866654 1867217 R Code: S; COG: COG2840; hypothetical protein complement(1866654..1867217) Shigella flexneri 5 str. 8401 4206710 YP_689284.1 CDS SFV_1819 NC_008258.1 1867956 1868924 R multidrug resistance-like protein complement(1867956..1868924) Shigella flexneri 5 str. 8401 4206711 YP_689285.1 CDS SFV_1820 NC_008258.1 1868924 1869319 R secretion protein complement(1868924..1869319) Shigella flexneri 5 str. 8401 4206712 YP_689286.1 CDS SFV_1821 NC_008258.1 1869630 1870829 D IS1294 orf 1869630..1870829 Shigella flexneri 5 str. 8401 4206713 YP_689287.1 CDS SFV_1822 NC_008258.1 1870993 1871640 R secretion protein complement(1870993..1871640) Shigella flexneri 5 str. 8401 4206714 YP_689288.1 CDS SFV_1823 NC_008258.1 1871880 1872551 D Code: K; COG: COG2207; hypothetical protein 1871880..1872551 Shigella flexneri 5 str. 8401 4206715 YP_689289.1 CDS ogt NC_008258.1 1873095 1873610 D Code: L; COG: COG0350; O-6-alkylguanine-DNA:cysteine-protein methyltransferase 1873095..1873610 Shigella flexneri 5 str. 8401 4206716 YP_689290.1 CDS fnr NC_008258.1 1873805 1874557 D Global transcription factor that controls the expression of over 100 target genes in response to anoxia; fumarate/nitrate reduction transcriptional regulator 1873805..1874557 Shigella flexneri 5 str. 8401 4206717 YP_689291.1 CDS ydaA NC_008258.1 1874709 1875659 D with UspC and UspD is involved in resistance to UV irradiation; universal stress protein UspE 1874709..1875659 Shigella flexneri 5 str. 8401 4206718 YP_689292.1 CDS ynaJ NC_008258.1 1875799 1875966 R hypothetical protein complement(1875799..1875966) Shigella flexneri 5 str. 8401 4206719 YP_689293.1 CDS SFV_1828 NC_008258.1 1876166 1876732 R IS911 ORF2 complement(1876166..1876732) Shigella flexneri 5 str. 8401 4206720 YP_689294.1 CDS SFV_1829 NC_008258.1 1877033 1877335 R Code: L; COG: COG2963; IS911 ORF1 complement(1877033..1877335) Shigella flexneri 5 str. 8401 4206721 YP_689295.1 CDS SFV_1830 NC_008258.1 1877463 1878494 D Code: M; COG: COG0668; hypothetical protein 1877463..1878494 Shigella flexneri 5 str. 8401 4206722 YP_689296.1 CDS SFV_1831 NC_008258.1 1878545 1880179 R Code: E; COG: COG4166; transport periplasmic protein complement(1878545..1880179) Shigella flexneri 5 str. 8401 4206723 YP_689297.1 CDS SFV_1833 NC_008258.1 1881026 1881328 D Code: L; COG: COG2963; IS600 ORF1 1881026..1881328 Shigella flexneri 5 str. 8401 4206821 YP_689298.1 CDS SFV_1834 NC_008258.1 1881469 1882182 D Code: L; COG: COG2801; IS600 ORF2 1881469..1882182 Shigella flexneri 5 str. 8401 4206822 YP_689299.1 CDS SFV_1836 NC_008258.1 1883130 1883402 D host-nuclease inhibitor protein Gam 1883130..1883402 Shigella flexneri 5 str. 8401 4206824 YP_689300.1 CDS SFV_1837 NC_008258.1 1883486 1884529 D bacteriophage protein 1883486..1884529 Shigella flexneri 5 str. 8401 4206825 YP_689301.1 CDS SFV_1838 NC_008258.1 1884869 1885171 D Code: L; COG: COG2963; IS600 ORF1 1884869..1885171 Shigella flexneri 5 str. 8401 4206826 YP_689302.1 CDS SFV_1839 NC_008258.1 1885312 1886025 D Code: L; COG: COG2801; IS600 ORF2 1885312..1886025 Shigella flexneri 5 str. 8401 4206827 YP_689303.1 CDS SFV_1840 NC_008258.1 1886389 1887465 D Code: L; COG: COG0582; phage integrase 1886389..1887465 Shigella flexneri 5 str. 8401 4206828 YP_689304.1 CDS SFV_1841 NC_008258.1 1887858 1888199 R hypothetical protein complement(1887858..1888199) Shigella flexneri 5 str. 8401 4206829 YP_689305.1 CDS SFV_1842 NC_008258.1 1888212 1889084 R Code: P; COG: COG1276; resistance protein complement(1888212..1889084) Shigella flexneri 5 str. 8401 4206830 YP_689306.1 CDS SFV_1843 NC_008258.1 1889088 1889462 R Code: R; COG: COG2372; hypothetical protein complement(1889088..1889462) Shigella flexneri 5 str. 8401 4206831 YP_689307.1 CDS holE NC_008258.1 1889601 1889831 D DNA polymerase III subunit theta 1889601..1889831 Shigella flexneri 5 str. 8401 4206832 YP_689308.1 CDS SFV_1845 NC_008258.1 1890164 1890589 D Code: R; COG: COG0388; hypothetical protein 1890164..1890589 Shigella flexneri 5 str. 8401 4206833 YP_689309.1 CDS SFV_1846 NC_008258.1 1890613 1891275 D 3'-5' exonuclease activity on single or double-strand DNA; exodeoxyribonuclease X 1890613..1891275 Shigella flexneri 5 str. 8401 4206834 YP_689310.1 CDS ptrB NC_008258.1 1891272 1893332 R PtrB; oligopeptidase that cleaves peptide bonds following arginine and lysine residues; protease 2 complement(1891272..1893332) Shigella flexneri 5 str. 8401 4206835 YP_689311.1 CDS yebE NC_008258.1 1893541 1894200 R Code: S; COG: COG2979; hypothetical protein complement(1893541..1894200) Shigella flexneri 5 str. 8401 4206836 YP_689312.1 CDS yebF NC_008258.1 1894527 1894895 R secreted protein; unknown function; hypothetical protein complement(1894527..1894895) Shigella flexneri 5 str. 8401 4206837 YP_689313.1 CDS purT NC_008258.1 1895374 1896552 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 1895374..1896552 Shigella flexneri 5 str. 8401 4206839 YP_689314.1 CDS eda NC_008258.1 1896608 1897249 R 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(1896608..1897249) Shigella flexneri 5 str. 8401 4208653 YP_689315.1 CDS edd NC_008258.1 1897286 1899097 R catalyzes the formation of 2-dehydro-3-deoxy-6-phospho-D-gluconate from 6-phospho-D-gluconate; phosphogluconate dehydratase complement(1897286..1899097) Shigella flexneri 5 str. 8401 4208654 YP_689316.1 CDS zwf NC_008258.1 1899332 1900807 R catalyzes the formation of D-glucono-1,5-lactone 6-phosphate from D-glucose 6-phosphate; glucose-6-phosphate 1-dehydrogenase complement(1899332..1900807) Shigella flexneri 5 str. 8401 4208655 YP_689317.1 CDS yebK NC_008258.1 1901144 1902013 D Represses the expression of the zwf, eda, glp and gap; DNA-binding transcriptional regulator HexR 1901144..1902013 Shigella flexneri 5 str. 8401 4208656 YP_689318.1 CDS pykA NC_008258.1 1902141 1903583 D catalyzes the formation of phosphoenolpyruvate from pyruvate; pyruvate kinase 1902141..1903583 Shigella flexneri 5 str. 8401 4208657 YP_689319.1 CDS msbB NC_008258.1 1903714 1904739 R 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(1903714..1904739) Shigella flexneri 5 str. 8401 4208658 YP_689320.1 CDS yebA NC_008258.1 1904805 1906127 R Code: M; COG: COG0739; hypothetical protein complement(1904805..1906127) Shigella flexneri 5 str. 8401 4208659 YP_689321.1 CDS znuA NC_008258.1 1906143 1907201 R involved in transport of zinc(II) with ZnuA and C; high-affinity zinc transporter periplasmic component complement(1906143..1907201) Shigella flexneri 5 str. 8401 4208661 YP_689322.1 CDS znuC NC_008258.1 1907154 1907909 D involved in transport of zinc(II) with ZnuA and C; high-affinity zinc transporter ATPase 1907154..1907909 Shigella flexneri 5 str. 8401 4208660 YP_689323.1 CDS znuB NC_008258.1 1907906 1908691 D involved in transport of zinc(II) with ZnuA and C; high-affinity zinc transporter membrane component 1907906..1908691 Shigella flexneri 5 str. 8401 4208662 YP_689324.1 CDS ruvB NC_008258.1 1908838 1909848 R 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(1908838..1909848) Shigella flexneri 5 str. 8401 4208663 YP_689325.1 CDS ruvA NC_008258.1 1909857 1910468 R plays an essential role in ATP-dependent branch migration of the Holliday junction; Holliday junction DNA helicase RuvA complement(1909857..1910468) Shigella flexneri 5 str. 8401 4208664 YP_689326.1 CDS yebB NC_008258.1 1910742 1911344 D hypothetical protein 1910742..1911344 Shigella flexneri 5 str. 8401 4208665 YP_689327.1 CDS ruvC NC_008258.1 1911346 1911867 R 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(1911346..1911867) Shigella flexneri 5 str. 8401 4208666 YP_689328.1 CDS yebC NC_008258.1 1911902 1912642 R Code: S; COG: COG0217; hypothetical protein complement(1911902..1912642) Shigella flexneri 5 str. 8401 4208667 YP_689329.1 CDS ntpA NC_008258.1 1912671 1913153 R converts dATP to dAMP and pyrophosphate; dATP pyrophosphohydrolase complement(1912671..1913153) Shigella flexneri 5 str. 8401 4208668 YP_689330.1 CDS aspS NC_008258.1 1913241 1915013 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(1913241..1915013) Shigella flexneri 5 str. 8401 4208669 YP_689331.1 CDS SFV_1870 NC_008258.1 1915769 1916965 D Code: L; COG: COG3547; ISSfl2 ORF 1915769..1916965 Shigella flexneri 5 str. 8401 4208671 YP_689332.1 CDS SFV_1871 NC_008258.1 1917694 1917942 D hypothetical protein 1917694..1917942 Shigella flexneri 5 str. 8401 4207005 YP_689333.1 CDS ipaH_3 NC_008258.1 1918541 1920292 D Code: S; COG: COG4886; invasion plasmid antigen 1918541..1920292 Shigella flexneri 5 str. 8401 4207006 YP_689334.1 CDS SFV_1873 NC_008258.1 1920472 1922460 R phage tail fiber protein complement(1920472..1922460) Shigella flexneri 5 str. 8401 4207007 YP_689335.1 CDS SFV_1874 NC_008258.1 1922524 1923123 R Code: M; COG: COG3637; hypothetical protein complement(1922524..1923123) Shigella flexneri 5 str. 8401 4207008 YP_689336.1 CDS SFV_1875 NC_008258.1 1923191 1926670 R Code: S; COG: COG4733; host specificity protein complement(1923191..1926670) Shigella flexneri 5 str. 8401 4207009 YP_689337.1 CDS SFV_1876 NC_008258.1 1926731 1927306 R Code: S; COG: COG4723; tail component of prophage complement(1926731..1927306) Shigella flexneri 5 str. 8401 4207010 YP_689338.1 CDS SFV_1877 NC_008258.1 1927270 1928082 R tail assembly protein complement(1927270..1928082) Shigella flexneri 5 str. 8401 4207011 YP_689339.1 CDS SFV_1878 NC_008258.1 1928018 1928959 R Code: S; COG: COG4672; minor tail protein complement(1928018..1928959) Shigella flexneri 5 str. 8401 4207012 YP_689340.1 CDS SFV_1880 NC_008258.1 1931973 1932302 R tail component of prophage complement(1931973..1932302) Shigella flexneri 5 str. 8401 4207014 YP_689341.1 CDS SFV_1881 NC_008258.1 1932311 1932697 R tail component of prophage complement(1932311..1932697) Shigella flexneri 5 str. 8401 4207015 YP_689342.1 CDS SFV_1882 NC_008258.1 1932756 1933496 R Code: N; COG: COG5492; tail component of prophage complement(1932756..1933496) Shigella flexneri 5 str. 8401 4207016 YP_689343.1 CDS SFV_1883 NC_008258.1 1933507 1933908 R tail component of prophage complement(1933507..1933908) Shigella flexneri 5 str. 8401 4207017 YP_689344.1 CDS SFV_1884 NC_008258.1 1933905 1934441 R tail component of prophage complement(1933905..1934441) Shigella flexneri 5 str. 8401 4207018 YP_689345.1 CDS SFV_1885 NC_008258.1 1934479 1934850 R tail attachment protein complement(1934479..1934850) Shigella flexneri 5 str. 8401 4207019 YP_689346.1 CDS SFV_1886 NC_008258.1 1934862 1935263 R DNA-packaging protein complement(1934862..1935263) Shigella flexneri 5 str. 8401 4207020 YP_689347.1 CDS SFV_1887 NC_008258.1 1935527 1936723 D Code: L; COG: COG3547; ISSfl2 ORF 1935527..1936723 Shigella flexneri 5 str. 8401 4207021 YP_689348.1 CDS SFV_1892 NC_008258.1 1937908 1938492 R Q antiterminator encoded by prophage complement(1937908..1938492) Shigella flexneri 5 str. 8401 4207438 YP_689349.1 CDS SFV_1893 NC_008258.1 1938594 1938953 R Code: L; COG: COG4570; endonuclease encoded by cryptic prophage complement(1938594..1938953) Shigella flexneri 5 str. 8401 4207439 YP_689350.1 CDS SFV_1894 NC_008258.1 1938953 1939141 R bacteriophage protein complement(1938953..1939141) Shigella flexneri 5 str. 8401 4207440 YP_689351.1 CDS SFV_1895 NC_008258.1 1939157 1939459 D Code: L; COG: COG2963; IS600 ORF1 1939157..1939459 Shigella flexneri 5 str. 8401 4207441 YP_689352.1 CDS SFV_1896 NC_008258.1 1939600 1940313 D Code: L; COG: COG2801; IS600 ORF2 1939600..1940313 Shigella flexneri 5 str. 8401 4207442 YP_689353.1 CDS SFV_1897 NC_008258.1 1940354 1941046 R Code: L; COG: COG2801; IS629 ORF2 complement(1940354..1941046) Shigella flexneri 5 str. 8401 4207443 YP_689354.1 CDS SFV_1898 NC_008258.1 1941046 1941372 R Code: L; COG: COG2963; IS629 ORF1 complement(1941046..1941372) Shigella flexneri 5 str. 8401 4207444 YP_689355.1 CDS SFV_1899 NC_008258.1 1941424 1942197 R hypothetical protein complement(1941424..1942197) Shigella flexneri 5 str. 8401 4207445 YP_689356.1 CDS SFV_1900 NC_008258.1 1942294 1943988 R hypothetical protein complement(1942294..1943988) Shigella flexneri 5 str. 8401 4207446 YP_689357.1 CDS SFV_1901 NC_008258.1 1945144 1945515 R hypothetical protein complement(1945144..1945515) Shigella flexneri 5 str. 8401 4207447 YP_689358.1 CDS SFV_1902 NC_008258.1 1947315 1947869 R hypothetical protein complement(1947315..1947869) Shigella flexneri 5 str. 8401 4207448 YP_689359.1 CDS SFV_1903 NC_008258.1 1950212 1951045 R hypothetical protein complement(1950212..1951045) Shigella flexneri 5 str. 8401 4207449 YP_689360.1 CDS SFV_1904 NC_008258.1 1951136 1951486 D hypothetical protein 1951136..1951486 Shigella flexneri 5 str. 8401 4207450 YP_689361.1 CDS yecN NC_008258.1 1951539 1951934 D Code: R; COG: COG3788; hypothetical protein 1951539..1951934 Shigella flexneri 5 str. 8401 4207451 YP_689362.1 CDS yecO NC_008258.1 1951975 1952718 D Code: QR; COG: COG0500; hypothetical protein 1951975..1952718 Shigella flexneri 5 str. 8401 4206951 YP_689363.1 CDS yecP NC_008258.1 1952715 1953686 D Code: QR; COG: COG0500; hypothetical protein 1952715..1953686 Shigella flexneri 5 str. 8401 4206952 YP_689364.1 CDS SFV_1908 NC_008258.1 1955058 1955423 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 1955058..1955423 Shigella flexneri 5 str. 8401 4206953 YP_689365.1 CDS SFV_1909 NC_008258.1 1955447 1956286 D Code: L; COG: COG2801; IS2 ORF2 1955447..1956286 Shigella flexneri 5 str. 8401 4206954 YP_689366.1 CDS yecK NC_008258.1 1957641 1958741 R Code: C; COG: COG3005; cytochrome C-type protein complement(1957641..1958741) Shigella flexneri 5 str. 8401 4206956 YP_689367.1 CDS cutC NC_008258.1 1959129 1959875 R Code: P; COG: COG3142; copper homeostasis protein CutC complement(1959129..1959875) Shigella flexneri 5 str. 8401 4206957 YP_689368.1 CDS yecM NC_008258.1 1959889 1960455 R Code: S; COG: COG3102; hypothetical protein complement(1959889..1960455) Shigella flexneri 5 str. 8401 4206958 YP_689369.1 CDS argS NC_008258.1 1960671 1962404 D 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 1960671..1962404 Shigella flexneri 5 str. 8401 4206959 YP_689370.1 CDS yecT NC_008258.1 1962581 1963069 D Code: S; COG: COG3755; hypothetical protein 1962581..1963069 Shigella flexneri 5 str. 8401 4206960 YP_689371.1 CDS SFV_1916 NC_008258.1 1963289 1963723 R IS629 ORF2 complement(1963289..1963723) Shigella flexneri 5 str. 8401 4206961 YP_689372.1 CDS SFV_1917 NC_008258.1 1963805 1964158 R IS629 ORF2 complement(1963805..1964158) Shigella flexneri 5 str. 8401 4206962 YP_689373.1 CDS SFV_1918 NC_008258.1 1964158 1964484 R Code: L; COG: COG2963; IS629 ORF1 complement(1964158..1964484) Shigella flexneri 5 str. 8401 4206963 YP_689374.1 CDS flhE NC_008258.1 1964536 1964874 R flagellar protein complement(1964536..1964874) Shigella flexneri 5 str. 8401 4206964 YP_689375.2 CDS flhB NC_008258.1 1966898 1968091 R membrane protein responsible for substrate specificity switching from rod/hook-type export to filament-type export; flagellar biosynthesis protein FlhB complement(1966898..1968091) Shigella flexneri 5 str. 8401 4206966 YP_689376.1 CDS SFV_1922 NC_008258.1 1968720 1969286 R IS911 ORF2 complement(1968720..1969286) Shigella flexneri 5 str. 8401 4206967 YP_689377.1 CDS SFV_1923 NC_008258.1 1969587 1969925 R Code: L; COG: COG2963; IS911 ORF1 complement(1969587..1969925) Shigella flexneri 5 str. 8401 4206968 YP_689378.1 CDS SFV_1924 NC_008258.1 1970030 1970425 D hypothetical protein 1970030..1970425 Shigella flexneri 5 str. 8401 4206969 YP_689379.1 CDS SFV_1925 NC_008258.1 1970654 1970779 D IS600 ORF1 1970654..1970779 Shigella flexneri 5 str. 8401 4206970 YP_689380.1 CDS SFV_1926 NC_008258.1 1970920 1971633 D Code: L; COG: COG2801; IS600 ORF2 1970920..1971633 Shigella flexneri 5 str. 8401 4208875 YP_689381.1 CDS cheZ NC_008258.1 1972137 1972781 R cytosolic phosphatase which functions in the chemotaxis signal transduction complex by controlling the level of phosphorylated CheY through dephosphorylation; chemotaxis regulator CheZ complement(1972137..1972781) Shigella flexneri 5 str. 8401 4208876 YP_689382.1 CDS cheY NC_008258.1 1972792 1973181 R 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 complement(1972792..1973181) Shigella flexneri 5 str. 8401 4208877 YP_689383.1 CDS cheB NC_008258.1 1973196 1974245 R regulates chemotaxis by demethylation of methyl-accepting chemotaxis proteins; chemotaxis-specific methylesterase complement(1973196..1974245) Shigella flexneri 5 str. 8401 4208878 YP_689384.1 CDS cheR NC_008258.1 1974248 1975108 R methylates the MCP; chemotaxis methyltransferase CheR complement(1974248..1975108) Shigella flexneri 5 str. 8401 4208879 YP_689385.1 CDS tap NC_008258.1 1975127 1976728 R mediates taxis toward dipeptides; methyl-accepting protein IV complement(1975127..1976728) Shigella flexneri 5 str. 8401 4208880 YP_689386.1 CDS tar NC_008258.1 1976774 1978435 R Code: NT; COG: COG0840; methyl-accepting chemotaxis protein II, aspartate sensor receptor complement(1976774..1978435) Shigella flexneri 5 str. 8401 4208881 YP_689387.1 CDS cheW NC_008258.1 1978580 1979083 R Code: NT; COG: COG0835; purine-binding chemotaxis protein complement(1978580..1979083) Shigella flexneri 5 str. 8401 4208882 YP_689388.1 CDS cheA NC_008258.1 1979104 1981068 R chemotactic sensory histidine kinase in two-component regulatory system with CheB and CheY; sensory histidine kinase/signal sensing protein; CheA is the histidine kinase component; chemotaxis protein CheA complement(1979104..1981068) Shigella flexneri 5 str. 8401 4208883 YP_689389.1 CDS motB NC_008258.1 1981073 1981999 R with MotA forms the ion channels that couple flagellar rotation to proton/sodium motive force across the membrane and forms the stator elements of the rotary flagellar machine; flagellar motor protein MotB complement(1981073..1981999) Shigella flexneri 5 str. 8401 4208884 YP_689390.1 CDS motA NC_008258.1 1981996 1982883 R With MotB forms the ion channels that couple flagellar rotation to proton/sodium motive force across the membrane and forms the stator elements of the rotary flagellar machine; flagellar motor protein MotA complement(1981996..1982883) Shigella flexneri 5 str. 8401 4208885 YP_689391.1 CDS flhC NC_008258.1 1983010 1983588 R 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 complement(1983010..1983588) Shigella flexneri 5 str. 8401 4208886 YP_689392.1 CDS yecG NC_008258.1 1984724 1985152 D ppGpp-dependent; membrane-associated, stress protein produced under conditions of nutrient deprivation, osmotic shock and oxidative stress; universal stress protein UspC 1984724..1985152 Shigella flexneri 5 str. 8401 4208888 YP_689393.1 CDS otsB NC_008258.1 1986548 1987348 R biosynthetic; catalyzes the formation of trehalose and phosphate from trehalose-6-phosphate; expression is increased under osmotic stress and induced during the transition to stationary phase and by decreased temperature; trehalose-6-phosphate phosphatase complement(1986548..1987348) Shigella flexneri 5 str. 8401 4208890 YP_689394.1 CDS araH NC_008258.1 1987515 1988501 R Part of the ABC transporter complex AraFGH involved in the high affinity transport of arabinose; L-arabinose transporter permease complement(1987515..1988501) Shigella flexneri 5 str. 8401 4208891 YP_689395.1 CDS araG NC_008258.1 1989144 1990025 R L-arabinose transport ATP-binding protein araG complement(1989144..1990025) Shigella flexneri 5 str. 8401 4208892 YP_689396.1 CDS araF NC_008258.1 1990095 1991084 R Code: G; COG: COG1879; L-arabinose-binding periplasmic protein complement(1990095..1991084) Shigella flexneri 5 str. 8401 4208893 YP_689397.1 CDS yecI NC_008258.1 1991881 1992384 D Code: P; COG: COG1528; ferritin 1991881..1992384 Shigella flexneri 5 str. 8401 4207452 YP_689399.1 CDS SFV_1947 NC_008258.1 1992464 1992715 R hypothetical protein complement(1992464..1992715) Shigella flexneri 5 str. 8401 4207454 YP_689400.1 CDS SFV_1948 NC_008258.1 1993179 1993502 D hypothetical protein 1993179..1993502 Shigella flexneri 5 str. 8401 4207455 YP_689401.1 CDS ftn NC_008258.1 1993673 1994170 D cytoplasmic iron storage protein; ferritin 1993673..1994170 Shigella flexneri 5 str. 8401 4207456 YP_689402.1 CDS yecH NC_008258.1 1994207 1994446 R hypothetical protein complement(1994207..1994446) Shigella flexneri 5 str. 8401 4207457 YP_689403.1 CDS tyrP NC_008258.1 1994636 1995847 D Code: E; COG: COG0814; tyrosine transporter 1994636..1995847 Shigella flexneri 5 str. 8401 4207458 YP_689404.1 CDS yecA NC_008258.1 1995909 1996574 R Code: R; COG: COG3318; hypothetical protein complement(1995909..1996574) Shigella flexneri 5 str. 8401 4207459 YP_689405.1 CDS pgsA NC_008258.1 1997224 1997772 R Code: I; COG: COG0558; phosphatidylglycerophosphate synthetase complement(1997224..1997772) Shigella flexneri 5 str. 8401 4207463 YP_689406.1 CDS uvrC NC_008258.1 1997829 1999595 R 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 complement(1997829..1999595) Shigella flexneri 5 str. 8401 4207464 YP_689407.1 CDS uvrY NC_008258.1 1999658 2000278 R 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 complement(1999658..2000278) Shigella flexneri 5 str. 8401 4207465 YP_689408.1 CDS yecF NC_008258.1 2000773 2000997 D hypothetical protein 2000773..2000997 Shigella flexneri 5 str. 8401 4207466 YP_689409.1 CDS sdiA NC_008258.1 2001024 2001650 R Code: K; COG: COG2771; cell division protein FtsQ complement(2001024..2001650) Shigella flexneri 5 str. 8401 4207467 YP_689410.1 CDS yecC NC_008258.1 2001880 2002632 R Code: E; COG: COG1126; amino-acid ABC transporter ATP-binding protein YecC complement(2001880..2002632) Shigella flexneri 5 str. 8401 4207488 YP_689411.1 CDS yecS NC_008258.1 2002629 2003297 R Code: E; COG: COG0765; transport system permease complement(2002629..2003297) Shigella flexneri 5 str. 8401 4207489 YP_689412.1 CDS yedO NC_008258.1 2003312 2004298 R catalyzes the formation of pyruvate from D-cysteine; D-cysteine desulfhydrase complement(2003312..2004298) Shigella flexneri 5 str. 8401 4207490 YP_689413.1 CDS fliY NC_008258.1 2004403 2005203 R Code: ET; COG: COG0834; cystine transporter subunit complement(2004403..2005203) Shigella flexneri 5 str. 8401 4207491 YP_689414.1 CDS fliZ NC_008258.1 2005291 2005842 R 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 complement(2005291..2005842) Shigella flexneri 5 str. 8401 4207492 YP_689415.1 CDS fliA NC_008258.1 2005888 2006577 R 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 complement(2005888..2006577) Shigella flexneri 5 str. 8401 4207493 YP_689416.1 CDS fliC NC_008258.1 2006772 2008424 R 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 complement(2006772..2008424) Shigella flexneri 5 str. 8401 4207494 YP_689417.1 CDS fliD NC_008258.1 2008690 2010096 D involved in flagellin assembly; flagellar capping protein 2008690..2010096 Shigella flexneri 5 str. 8401 4207495 YP_689418.1 CDS fliS NC_008258.1 2010121 2010531 D flagellin specific chaperone; flagellar protein FliS 2010121..2010531 Shigella flexneri 5 str. 8401 4207496 YP_689419.1 CDS fliT NC_008258.1 2010531 2010896 D binds flagellar cap subunits (FliD) and seems to prevents their oligomerization prior to its translocation through the flagellum-specific type III export pathway; acts as a repressor of flagellar class 2 operons by preventing FlhD2C2 to bind the promoter and inhibiting the FlhD2C2-dependent transcription; member of the type III cytoplasmic chaperone family; flagellar biosynthesis protein FliT 2010531..2010896 Shigella flexneri 5 str. 8401 4207497 YP_689420.1 CDS amyA NC_008258.1 2010974 2012461 D converts 1,4-alpha-D-glucans to maltodextrin; cytoplasmic alpha-amylase 2010974..2012461 Shigella flexneri 5 str. 8401 4207498 YP_689421.1 CDS yedD NC_008258.1 2012495 2012878 R hypothetical protein complement(2012495..2012878) Shigella flexneri 5 str. 8401 4207499 YP_689422.1 CDS yedE NC_008258.1 2013095 2014300 D Code: R; COG: COG2391; inner membrane protein 2013095..2014300 Shigella flexneri 5 str. 8401 4207500 YP_689423.1 CDS yedF NC_008258.1 2014297 2014530 D Code: O; COG: COG0425; hypothetical protein 2014297..2014530 Shigella flexneri 5 str. 8401 4207501 YP_689424.1 CDS SFV_1976 NC_008258.1 2015347 2016153 R Code: L; COG: COG0675; virulence protein complement(2015347..2016153) Shigella flexneri 5 str. 8401 4207503 YP_689425.1 CDS nmpC NC_008258.1 2017566 2018648 D Code: M; COG: COG3203; porin 2017566..2018648 Shigella flexneri 5 str. 8401 4207504 YP_689426.1 CDS ybcM NC_008258.1 2019137 2019934 R Code: K; COG: COG2207; regulator complement(2019137..2019934) Shigella flexneri 5 str. 8401 4207505 YP_689427.1 CDS emrE NC_008258.1 2020664 2021161 R member of the small MDR (multidrug resistance) family of transporters; in Escherichia coli this protein provides resistance against a number of positively charged compounds including ethidium bromide and erythromycin; proton-dependent secondary transporter which exchanges protons for compound translocation; multidrug efflux protein complement(2020664..2021161) Shigella flexneri 5 str. 8401 4207506 YP_689428.1 CDS fliE NC_008258.1 2021341 2021655 R forms a junction between the M-ring and FlgB during flagella biosynthesis; flagellar hook-basal body protein FliE complement(2021341..2021655) Shigella flexneri 5 str. 8401 4207507 YP_689429.1 CDS fliG NC_008258.1 2023592 2024515 D One of three proteins involved in switching the direction of the flagellar rotation; flagellar motor switch protein G 2023592..2024515 Shigella flexneri 5 str. 8401 4207118 YP_689430.1 CDS fliH NC_008258.1 2024508 2025194 D binds to and inhibits the function of flagella specific ATPase FliI; flagellar assembly protein H 2024508..2025194 Shigella flexneri 5 str. 8401 4207119 YP_689431.1 CDS fliI NC_008258.1 2025194 2026567 D involved in type III protein export during flagellum assembly; flagellum-specific ATP synthase 2025194..2026567 Shigella flexneri 5 str. 8401 4207120 YP_689432.1 CDS fliK NC_008258.1 2026927 2028054 D Code: N; COG: COG3144; flagellar hook-length control protein 2026927..2028054 Shigella flexneri 5 str. 8401 4207122 YP_689433.1 CDS fliL NC_008258.1 2028159 2028623 D 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 protein FliL 2028159..2028623 Shigella flexneri 5 str. 8401 4207123 YP_689434.1 CDS fliM NC_008258.1 2028583 2029632 D 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 2028583..2029632 Shigella flexneri 5 str. 8401 4207124 YP_689435.1 CDS fliN NC_008258.1 2029629 2030042 D One of three proteins involved in switching the direction of the flagellar rotation; flagellar motor switch protein FliN 2029629..2030042 Shigella flexneri 5 str. 8401 4207125 YP_689436.1 CDS fliO NC_008258.1 2030045 2030410 D with FlhA, FlhB, FliP, FliQ and FliR is one of the membrane components of the flagellar export apparatus; flagellar biosynthesis protein FliO 2030045..2030410 Shigella flexneri 5 str. 8401 4207126 YP_689437.1 CDS fliP NC_008258.1 2030410 2031147 D FliP, with proteins FliQ and FliR, forms the core of the central channel in the flagella export apparatus; flagellar biosynthesis protein FliP 2030410..2031147 Shigella flexneri 5 str. 8401 4207127 YP_689438.1 CDS fliQ NC_008258.1 2031157 2031426 D with proteins FliP and FliR forms the core of the central channel in the flagella export apparatus; flagellar biosynthesis protein FliQ 2031157..2031426 Shigella flexneri 5 str. 8401 4207128 YP_689439.1 CDS fliR NC_008258.1 2031435 2032220 D FliR, with proteins FliP and FliQ, forms the core of the central channel in the flagella export apparatus; flagellar biosynthesis protein FliR 2031435..2032220 Shigella flexneri 5 str. 8401 4207129 YP_689440.1 CDS rcsA NC_008258.1 2032505 2033128 D Code: K; COG: COG2771; positive regulator for ctr capsule biosynthesis, positive transcription factor 2032505..2033128 Shigella flexneri 5 str. 8401 4207130 YP_689441.1 CDS dsrB NC_008258.1 2033172 2033420 R hypothetical protein complement(2033172..2033420) Shigella flexneri 5 str. 8401 4207131 YP_689442.1 CDS SFV_1996 NC_008258.1 2033523 2033750 D hypothetical protein 2033523..2033750 Shigella flexneri 5 str. 8401 4207132 YP_689443.1 CDS SFV_1998 NC_008258.1 2034860 2036344 R hypothetical protein complement(2034860..2036344) Shigella flexneri 5 str. 8401 4207134 YP_689444.1 CDS yedI NC_008258.1 2036986 2037903 R Code: S; COG: COG2354; hypothetical protein complement(2036986..2037903) Shigella flexneri 5 str. 8401 4207135 YP_689445.1 CDS yedA NC_008258.1 2038076 2038996 D Code: GER; COG: COG0697; hypothetical protein 2038076..2038996 Shigella flexneri 5 str. 8401 4206859 YP_689446.1 CDS vsr NC_008258.1 2038985 2039455 R Code: L; COG: COG3727; DNA mismatch endonuclease, patch repair protein complement(2038985..2039455) Shigella flexneri 5 str. 8401 4206860 YP_689447.1 CDS dcm NC_008258.1 2039436 2040854 R Code: L; COG: COG0270; DNA cytosine methylase complement(2039436..2040854) Shigella flexneri 5 str. 8401 4206861 YP_689448.1 CDS yedJ NC_008258.1 2040967 2041422 R Code: R; COG: COG1418; hypothetical protein complement(2040967..2041422) Shigella flexneri 5 str. 8401 4206862 YP_689449.1 CDS SFV_2004 NC_008258.1 2041759 2042571 R Code: L; COG: COG2801; ISEhe3 orfB complement(2041759..2042571) Shigella flexneri 5 str. 8401 4206863 YP_689450.1 CDS SFV_2005 NC_008258.1 2042628 2042906 R Code: L; COG: COG2963; ISEhe3 orfA complement(2042628..2042906) Shigella flexneri 5 str. 8401 4206864 YP_689451.1 CDS SFV_2006 NC_008258.1 2042933 2043820 D Code: M; COG: COG3203; outer membrane pore protein 2042933..2043820 Shigella flexneri 5 str. 8401 4206865 YP_689452.2 CDS SFV_2007 NC_008258.1 2043745 2044650 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(2043745..2044650) Shigella flexneri 5 str. 8401 4206866 YP_689453.1 CDS SFV_2008 NC_008258.1 2044608 2044973 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(2044608..2044973) Shigella flexneri 5 str. 8401 4206867 YP_689454.1 CDS SFV_2009 NC_008258.1 2045037 2045246 D outer membrane protein 2045037..2045246 Shigella flexneri 5 str. 8401 4206868 YP_689455.1 CDS SFV_2010 NC_008258.1 2045718 2045993 R IS1 encoded protein complement(2045718..2045993) Shigella flexneri 5 str. 8401 4206869 YP_689456.1 CDS insB NC_008258.1 2046068 2046571 D Code: L; COG: COG1662; IS1 ORF2 2046068..2046571 Shigella flexneri 5 str. 8401 4206870 YP_689457.1 CDS yedU NC_008258.1 2046617 2047468 D Hsp31 stabilizes early unfolding protein intermediates under severe heat stress; chaperone protein HchA 2046617..2047468 Shigella flexneri 5 str. 8401 4206871 YP_689458.1 CDS yedV NC_008258.1 2047576 2048934 R Code: T; COG: COG0642; 2-component sensor protein complement(2047576..2048934) Shigella flexneri 5 str. 8401 4206872 YP_689459.1 CDS yedW NC_008258.1 2048934 2049716 R 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 complement(2048934..2049716) Shigella flexneri 5 str. 8401 4206873 YP_689460.1 CDS SFV_2015 NC_008258.1 2049738 2050151 D Code: R; COG: COG2351; hypothetical protein 2049738..2050151 Shigella flexneri 5 str. 8401 4206874 YP_689461.1 CDS SFV_2017 NC_008258.1 2051265 2051900 D 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 2051265..2051900 Shigella flexneri 5 str. 8401 4206876 YP_689462.1 CDS SFV_2018 NC_008258.1 2052158 2052808 D Code: R; COG: COG3443; hypothetical protein 2052158..2052808 Shigella flexneri 5 str. 8401 4206877 YP_689463.1 CDS SFV_2019 NC_008258.1 2053886 2054155 R hypothetical protein complement(2053886..2054155) Shigella flexneri 5 str. 8401 4206878 YP_689464.1 CDS SFV_2020 NC_008258.1 2054224 2054880 D Code: QR; COG: COG0500; prophage protein 2054224..2054880 Shigella flexneri 5 str. 8401 4206990 YP_689465.1 CDS ipaH_4 NC_008258.1 2055196 2056839 D Code: S; COG: COG4886; invasion plasmid antigen 2055196..2056839 Shigella flexneri 5 str. 8401 4206991 YP_689466.1 CDS SFV_2022 NC_008258.1 2057019 2057396 R hypothetical protein complement(2057019..2057396) Shigella flexneri 5 str. 8401 4206992 YP_689467.1 CDS SFV_2023 NC_008258.1 2057539 2058252 R Code: L; COG: COG2801; IS600 ORF2 complement(2057539..2058252) Shigella flexneri 5 str. 8401 4206993 YP_689468.1 CDS SFV_2024 NC_008258.1 2058393 2058695 R Code: L; COG: COG2963; IS600 ORF1 complement(2058393..2058695) Shigella flexneri 5 str. 8401 4206994 YP_689469.1 CDS SFV_2025 NC_008258.1 2058752 2059120 R ISSfl4 ORF3 complement(2058752..2059120) Shigella flexneri 5 str. 8401 4206995 YP_689470.1 CDS SFV_2026 NC_008258.1 2059298 2059573 R ISSfl4 ORF3 complement(2059298..2059573) Shigella flexneri 5 str. 8401 4206996 YP_689471.1 CDS SFV_2027 NC_008258.1 2059570 2059920 R Code: L; COG: COG3436; ISSfl4 ORF2 complement(2059570..2059920) Shigella flexneri 5 str. 8401 4206997 YP_689472.1 CDS SFV_2028 NC_008258.1 2059917 2060591 R ISSfl4 ORF1 complement(2059917..2060591) Shigella flexneri 5 str. 8401 4206998 YP_689473.1 CDS SFV_2029 NC_008258.1 2060690 2060905 R hypothetical protein complement(2060690..2060905) Shigella flexneri 5 str. 8401 4206999 YP_689474.1 CDS SFV_2035 NC_008258.1 2062385 2062750 R Code: L; COG: COG4570; endonuclease encoded by cryptic prophage complement(2062385..2062750) Shigella flexneri 5 str. 8401 4207419 YP_689475.1 CDS SFV_2036 NC_008258.1 2062751 2063377 R hypothetical protein complement(2062751..2063377) Shigella flexneri 5 str. 8401 4207420 YP_689476.1 CDS SFV_2037 NC_008258.1 2063393 2063809 R hypothetical protein complement(2063393..2063809) Shigella flexneri 5 str. 8401 4207421 YP_689477.1 CDS SFV_2038 NC_008258.1 2065064 2065630 R hypothetical protein complement(2065064..2065630) Shigella flexneri 5 str. 8401 4207422 YP_689478.1 CDS insB NC_008258.1 2065744 2066247 D Code: L; COG: COG1662; IS1 ORF2 2065744..2066247 Shigella flexneri 5 str. 8401 4207423 YP_689479.1 CDS SFV_2040 NC_008258.1 2066379 2066684 R hypothetical protein complement(2066379..2066684) Shigella flexneri 5 str. 8401 4207424 YP_689480.1 CDS insB NC_008258.1 2066723 2067226 R Code: L; COG: COG1662; IS1 ORF2 complement(2066723..2067226) Shigella flexneri 5 str. 8401 4207425 YP_689481.1 CDS SFV_2042 NC_008258.1 2067301 2067507 D IS1 encoded protein 2067301..2067507 Shigella flexneri 5 str. 8401 4207426 YP_689482.1 CDS SFV_2043 NC_008258.1 2067629 2068666 D Code: L; COG: COG0582; integrase for prophage CP-933U 2067629..2068666 Shigella flexneri 5 str. 8401 4207427 YP_689483.1 CDS SFV_2045 NC_008258.1 2068877 2069674 D Code: S; COG: COG3228; hypothetical protein 2068877..2069674 Shigella flexneri 5 str. 8401 4207429 YP_689484.1 CDS SFV_2047 NC_008258.1 2070525 2071274 D integrase 2070525..2071274 Shigella flexneri 5 str. 8401 4207431 YP_689485.1 CDS SFV_2048 NC_008258.1 2071381 2071947 R IS911 ORF2 complement(2071381..2071947) Shigella flexneri 5 str. 8401 4207432 YP_689486.1 CDS SFV_2049 NC_008258.1 2072248 2072550 R Code: L; COG: COG2963; IS911 ORF1 complement(2072248..2072550) Shigella flexneri 5 str. 8401 4207433 YP_689487.1 CDS SFV_2051 NC_008258.1 2073177 2073479 D Code: L; COG: COG2963; IS600 ORF1 2073177..2073479 Shigella flexneri 5 str. 8401 4207435 YP_689488.1 CDS SFV_2052 NC_008258.1 2073620 2074333 D Code: L; COG: COG2801; IS600 ORF2 2073620..2074333 Shigella flexneri 5 str. 8401 4207176 YP_689489.1 CDS amn NC_008258.1 2074685 2076139 D Catalyzes the hydrolysis of AMP to form adenine and ribose 5-phosphate using water as the nucleophile; AMP nucleosidase 2074685..2076139 Shigella flexneri 5 str. 8401 4207177 YP_689490.1 CDS SFV_2054 NC_008258.1 2076482 2077198 D Code: S; COG: COG0217; hypothetical protein 2076482..2077198 Shigella flexneri 5 str. 8401 4207178 YP_689491.1 CDS SFV_2056 NC_008258.1 2078139 2078636 R hypothetical protein complement(2078139..2078636) Shigella flexneri 5 str. 8401 4207180 YP_689492.1 CDS SFV_2057 NC_008258.1 2078627 2079127 R hypothetical protein complement(2078627..2079127) Shigella flexneri 5 str. 8401 4207181 YP_689493.1 CDS cbl NC_008258.1 2079575 2080525 R LysR-type transcriptional regulator similar to CysB; contains helix-turn-helix (HTH) motif; in Escherichia coli this protein regulates two operons consisting of ABC transporters that are part of the cys regulon; regulated by CysB; transcriptional regulator Cbl complement(2079575..2080525) Shigella flexneri 5 str. 8401 4207183 YP_689494.1 CDS nac NC_008258.1 2080627 2081544 R Transcriptional activator for the hut, put and ure operons and repressor for the gdh and gltB operons in response to nitrogen limitation; nitrogen assimilation transcriptional regulator complement(2080627..2081544) Shigella flexneri 5 str. 8401 4207184 YP_689495.1 CDS erfK NC_008258.1 2082003 2082938 R Code: S; COG: COG1376; hypothetical protein complement(2082003..2082938) Shigella flexneri 5 str. 8401 4207186 YP_689496.1 CDS cobT NC_008258.1 2083000 2084079 R catalyzes the synthesis of alpha-ribazole-5'-phosphate from nicotinate mononucleotide and 5,6-dimethylbenzimidazole; nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase complement(2083000..2084079) Shigella flexneri 5 str. 8401 4207187 YP_689497.1 CDS cobS NC_008258.1 2084091 2084834 R catalyzes the formation of adenosylcobalamin from Ado-cobinamide-GDP and alpha-ribazole; cobalamin synthase complement(2084091..2084834) Shigella flexneri 5 str. 8401 4207188 YP_689498.1 CDS cobU NC_008258.1 2084831 2085376 R catalyzes ATP-dependent phosphorylation of adenosylcobinamide to form adenosylcobinamide phosphate and the addition of guanosine monophosphate to adenosylcobinamide phosphate to form adenosylcobinamide-GDP; adenosylcobinamide kinase complement(2084831..2085376) Shigella flexneri 5 str. 8401 4207189 YP_689499.1 CDS SFV_2066 NC_008258.1 2086373 2087215 R hypothetical protein complement(2086373..2087215) Shigella flexneri 5 str. 8401 4207190 YP_689500.1 CDS SFV_2067 NC_008258.1 2087736 2087861 D IS600 ORF1 2087736..2087861 Shigella flexneri 5 str. 8401 4207191 YP_689501.1 CDS SFV_2068 NC_008258.1 2088002 2088742 D Code: L; COG: COG2801; IS600 ORF2 2088002..2088742 Shigella flexneri 5 str. 8401 4207136 YP_689502.1 CDS SFV_2069 NC_008258.1 2089218 2090057 R Code: L; COG: COG0582; integrase of prophage complement(2089218..2090057) Shigella flexneri 5 str. 8401 4207137 YP_689503.1 CDS sbcB NC_008258.1 2090239 2091663 D Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates; exonuclease I 2090239..2091663 Shigella flexneri 5 str. 8401 4207138 YP_689504.1 CDS yeeD NC_008258.1 2091706 2091933 R Code: O; COG: COG0425; hypothetical protein complement(2091706..2091933) Shigella flexneri 5 str. 8401 4207139 YP_689505.1 CDS yeeE NC_008258.1 2091947 2092951 R Code: R; COG: COG2391; transport system permease complement(2091947..2092951) Shigella flexneri 5 str. 8401 4207140 YP_689506.1 CDS yeeF NC_008258.1 2093184 2094542 R Code: E; COG: COG0531; amino acid/amine transport protein complement(2093184..2094542) Shigella flexneri 5 str. 8401 4207141 YP_689507.1 CDS yeeY NC_008258.1 2094755 2095738 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(2094755..2095738) Shigella flexneri 5 str. 8401 4207142 YP_689508.1 CDS SFV_2075 NC_008258.1 2095784 2096608 R Code: MG; COG: COG0451; sugar metabolism protein complement(2095784..2096608) Shigella flexneri 5 str. 8401 4207143 YP_689509.1 CDS SFV_2076 NC_008258.1 2096691 2096945 R Code: S; COG: COG4115; hypothetical protein complement(2096691..2096945) Shigella flexneri 5 str. 8401 4207144 YP_689510.1 CDS insB NC_008258.1 2096967 2097470 R Code: L; COG: COG1662; IS1 ORF2 complement(2096967..2097470) Shigella flexneri 5 str. 8401 4207145 YP_689511.1 CDS yefM NC_008258.1 2097698 2097970 R Antitoxin that counteracts the effect of the YoeB toxin; antitoxin YefM complement(2097698..2097970) Shigella flexneri 5 str. 8401 4207146 YP_689512.1 CDS hisG NC_008258.1 2098440 2099339 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 2098440..2099339 Shigella flexneri 5 str. 8401 4207147 YP_689513.1 CDS hisD NC_008258.1 2099345 2100649 D catalyzes the oxidation of L-histidinol to L-histidinaldehyde and then to L-histidine in histidine biosynthesis; functions as a dimer; histidinol dehydrogenase 2099345..2100649 Shigella flexneri 5 str. 8401 4207148 YP_689514.1 CDS hisC NC_008258.1 2100646 2101716 D catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis; histidinol-phosphate aminotransferase 2100646..2101716 Shigella flexneri 5 str. 8401 4207149 YP_689515.1 CDS hisB NC_008258.1 2101716 2102783 D 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 2101716..2102783 Shigella flexneri 5 str. 8401 4207150 YP_689516.1 CDS hisH NC_008258.1 2102783 2103373 D 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 2102783..2103373 Shigella flexneri 5 str. 8401 4207151 YP_689517.1 CDS hisA NC_008258.1 2103373 2104110 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 2103373..2104110 Shigella flexneri 5 str. 8401 4207152 YP_689518.1 CDS hisF NC_008258.1 2104092 2104868 D imidazole glycerol phosphate synthase subunit in heterodimer with HisH; 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 2104092..2104868 Shigella flexneri 5 str. 8401 4207153 YP_689519.1 CDS hisI NC_008258.1 2104862 2105473 D 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 2104862..2105473 Shigella flexneri 5 str. 8401 4207154 YP_689520.1 CDS wzzB NC_008258.1 2105659 2106672 R Code: M; COG: COG3765; regulator of length of O-antigen component of lipopolysaccharide chains complement(2105659..2106672) Shigella flexneri 5 str. 8401 4207155 YP_689521.1 CDS gnd NC_008258.1 2108152 2109558 R catalyzes the formation of D-ribulose 5-phosphate from 6-phospho-D-gluconate; 6-phosphogluconate dehydrogenase complement(2108152..2109558) Shigella flexneri 5 str. 8401 4207247 YP_689522.1 CDS SFV_2090 NC_008258.1 2110675 2111325 R hypothetical protein complement(2110675..2111325) Shigella flexneri 5 str. 8401 4207248 YP_689523.1 CDS rfc NC_008258.1 2112825 2113973 R O-antigen polymerase complement(2112825..2113973) Shigella flexneri 5 str. 8401 4207249 YP_689524.1 CDS rfbG NC_008258.1 2113993 2114898 R dTDP-rhamnosyl transferase complement(2113993..2114898) Shigella flexneri 5 str. 8401 4207250 YP_689525.1 CDS rfbF NC_008258.1 2114891 2115652 R dTDP-rhamnosyl transferase complement(2114891..2115652) Shigella flexneri 5 str. 8401 4207251 YP_689526.1 CDS rfbE NC_008258.1 2115811 2117067 R polysaccharide biosynthesis protein complement(2115811..2117067) Shigella flexneri 5 str. 8401 4207252 YP_689527.1 CDS rfbC NC_008258.1 2117083 2117628 R Code: M; COG: COG1898; dTDP-6-deoxy-L-mannose-dehydrogenase complement(2117083..2117628) Shigella flexneri 5 str. 8401 4207253 YP_689528.1 CDS rfbA NC_008258.1 2117633 2118511 R Code: M; COG: COG1209; glucose-1-phosphate thymidylyltransferase complement(2117633..2118511) Shigella flexneri 5 str. 8401 4207254 YP_689529.1 CDS rfbD NC_008258.1 2118570 2119469 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(2118570..2119469) Shigella flexneri 5 str. 8401 4207255 YP_689530.1 CDS rfbB NC_008258.1 2119469 2120554 R NAD(P) binding; catalyzes the formation of dTDP-4-dehydro-6-deoxy-D-glucose from dTDP-glucose; dTDP-glucose 4,6 dehydratase complement(2119469..2120554) Shigella flexneri 5 str. 8401 4207256 YP_689531.1 CDS galF NC_008258.1 2120927 2121820 R 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 complement(2120927..2121820) Shigella flexneri 5 str. 8401 4207257 YP_689532.1 CDS wcaL NC_008258.1 2123400 2124620 R Code: M; COG: COG0438; colanic acid biosynthesis glycosyl transferase complement(2123400..2124620) Shigella flexneri 5 str. 8401 4207259 YP_689533.1 CDS wcaK NC_008258.1 2124617 2125897 R Code: S; COG: COG2327; pyruvyl transferase complement(2124617..2125897) Shigella flexneri 5 str. 8401 4207260 YP_689534.1 CDS wzxC NC_008258.1 2126077 2127555 R Code: R; COG: COG2244; colanic acid exporter complement(2126077..2127555) Shigella flexneri 5 str. 8401 4207261 YP_689535.1 CDS wcaJ NC_008258.1 2127557 2128951 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(2127557..2128951) Shigella flexneri 5 str. 8401 4207262 YP_689536.1 CDS cpsB NC_008258.1 2130570 2131889 R Code: M; COG: COG0836; mannose-1-phosphate guanylyltransferase complement(2130570..2131889) Shigella flexneri 5 str. 8401 4207264 YP_689537.1 CDS wcaI NC_008258.1 2132009 2133232 R Code: M; COG: COG0438; glycosyl transferase complement(2132009..2133232) Shigella flexneri 5 str. 8401 4206800 YP_689538.1 CDS wcaH NC_008258.1 2133229 2133708 R Code: LR; COG: COG0494; GDP-mannose mannosyl hydrolase complement(2133229..2133708) Shigella flexneri 5 str. 8401 4206801 YP_689539.1 CDS wcaG NC_008258.1 2133708 2134676 R Code: MG; COG: COG0451; nucleotide di-P-sugar epimerase or dehydratase complement(2133708..2134676) Shigella flexneri 5 str. 8401 4206802 YP_689540.1 CDS gmd NC_008258.1 2134679 2135800 R Code: M; COG: COG1089; GDP-D-mannose dehydratase complement(2134679..2135800) Shigella flexneri 5 str. 8401 4206803 YP_689541.1 CDS wcaF NC_008258.1 2135826 2136374 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(2135826..2136374) Shigella flexneri 5 str. 8401 4206804 YP_689542.1 CDS SFV_2112 NC_008258.1 2136390 2136689 R IS1 encoded protein complement(2136390..2136689) Shigella flexneri 5 str. 8401 4206805 YP_689543.1 CDS insB NC_008258.1 2136764 2137267 D Code: L; COG: COG1662; IS1 ORF2 2136764..2137267 Shigella flexneri 5 str. 8401 4206806 YP_689544.1 CDS wcaE NC_008258.1 2137278 2137910 R Code: M; COG: COG0463; colanic acid biosynthesis glycosyl transferase complement(2137278..2137910) Shigella flexneri 5 str. 8401 4206807 YP_689545.1 CDS wcaD NC_008258.1 2137924 2139141 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(2137924..2139141) Shigella flexneri 5 str. 8401 4206808 YP_689546.1 CDS wcaC NC_008258.1 2139116 2140333 R Code: M; COG: COG0438; glycosyl transferase complement(2139116..2140333) Shigella flexneri 5 str. 8401 4206809 YP_689547.1 CDS wcaB NC_008258.1 2140330 2140818 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(2140330..2140818) Shigella flexneri 5 str. 8401 4206810 YP_689548.1 CDS wcaA NC_008258.1 2140821 2141660 R Code: M; COG: COG0463; glycosyl transferase complement(2140821..2141660) Shigella flexneri 5 str. 8401 4206811 YP_689549.1 CDS SFV_2119 NC_008258.1 2141753 2143915 R Wzc; catalyzes the autophosphorylation on tyrosine residues which downregulates the biosynthesis of colonic acid (an extracellular polysaccharide); tyrosine kinase complement(2141753..2143915) Shigella flexneri 5 str. 8401 4206812 YP_689550.1 CDS wzb NC_008258.1 2143918 2144361 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(2143918..2144361) Shigella flexneri 5 str. 8401 4206813 YP_689551.1 CDS wza NC_008258.1 2144367 2145491 R Code: M; COG: COG1596; polysaccharide export protein complement(2144367..2145491) Shigella flexneri 5 str. 8401 4206814 YP_689552.1 CDS yegH NC_008258.1 2146099 2147748 D transport protein 2146099..2147748 Shigella flexneri 5 str. 8401 4206815 YP_689553.1 CDS asmA NC_008258.1 2148200 2150053 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(2148200..2150053) Shigella flexneri 5 str. 8401 4206816 YP_689554.1 CDS dcd NC_008258.1 2150075 2150656 R Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis; deoxycytidine triphosphate deaminase complement(2150075..2150656) Shigella flexneri 5 str. 8401 4206817 YP_689555.1 CDS udk NC_008258.1 2150748 2151443 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(2150748..2151443) Shigella flexneri 5 str. 8401 4206818 YP_689556.1 CDS SFV_2126 NC_008258.1 2152151 2153347 R Code: L; COG: COG3547; ISSfl2 ORF complement(2152151..2153347) Shigella flexneri 5 str. 8401 4206819 YP_689557.1 CDS SFV_2127 NC_008258.1 2153781 2154440 D Code: R; COG: COG4245; hypothetical protein 2153781..2154440 Shigella flexneri 5 str. 8401 4206971 YP_689558.1 CDS SFV_2128 NC_008258.1 2154437 2155198 D hypothetical protein 2154437..2155198 Shigella flexneri 5 str. 8401 4206972 YP_689559.1 CDS SFV_2129 NC_008258.1 2155195 2156718 D Code: R; COG: COG4248; chaperonin 2155195..2156718 Shigella flexneri 5 str. 8401 4206973 YP_689560.1 CDS yegD NC_008258.1 2157147 2158499 R Code: O; COG: COG0443; chaperone complement(2157147..2158499) Shigella flexneri 5 str. 8401 4206974 YP_689561.1 CDS alkA NC_008258.1 2158633 2159481 D inducible, catalyzes the hydrolysis of alkylated DNA, releasing 3-methyladenine, 3-methylguanine, 7-methylguanine and 7-methyladenine; 3-methyl-adenine DNA glycosylase 2158633..2159481 Shigella flexneri 5 str. 8401 4206975 YP_689562.1 CDS SFV_2133 NC_008258.1 2162710 2163906 D Code: L; COG: COG3547; ISSfl2 ORF 2162710..2163906 Shigella flexneri 5 str. 8401 4206977 YP_689563.1 CDS SFV_2134 NC_008258.1 2163908 2164960 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 2163908..2164960 Shigella flexneri 5 str. 8401 4206978 YP_689564.1 CDS yegN NC_008258.1 2164960 2167518 D Code: V; COG: COG0841; hypothetical protein 2164960..2167518 Shigella flexneri 5 str. 8401 4206979 YP_689565.1 CDS SFV_2136 NC_008258.1 2167588 2168082 D hypothetical protein 2167588..2168082 Shigella flexneri 5 str. 8401 4206980 YP_689566.1 CDS yegO NC_008258.1 2168083 2171148 D Part of a tripartite efflux system composed of MdtA, MdtB and MdtC; confers resistance against novobiocin and deoxycholate; multidrug efflux system subunit MdtC 2168083..2171148 Shigella flexneri 5 str. 8401 4206981 YP_689567.2 CDS yegB NC_008258.1 2171255 2172565 D Code: GEPR; COG: COG0477; multidrug ABC transporter 2171255..2172565 Shigella flexneri 5 str. 8401 4206982 YP_689568.1 CDS baeS NC_008258.1 2172562 2173965 D Code: T; COG: COG0642; signal transduction histidine-protein kinase BaeS 2172562..2173965 Shigella flexneri 5 str. 8401 4206983 YP_689569.1 CDS baeR NC_008258.1 2173962 2174684 D response regulator in two-component regulatory system with BaeS; regulator of RNA synthesis, flagellar biosynthesis, chemotaxis and transport; DNA-binding transcriptional regulator BaeR 2173962..2174684 Shigella flexneri 5 str. 8401 4206984 YP_689570.1 CDS SFV_2141 NC_008258.1 2174836 2175207 D Code: S; COG: COG3422; hypothetical protein 2174836..2175207 Shigella flexneri 5 str. 8401 4206985 YP_689571.1 CDS yegQ NC_008258.1 2175213 2176715 D Code: O; COG: COG0826; hypothetical protein 2175213..2176715 Shigella flexneri 5 str. 8401 4206986 YP_689572.1 CDS SFV_2143 NC_008258.1 2177057 2177434 R hypothetical protein complement(2177057..2177434) Shigella flexneri 5 str. 8401 4206987 YP_689573.1 CDS SFV_2144 NC_008258.1 2177782 2178681 D cytosolic protein with phosphatidylglycerol kinase activity; undetermined physiological role; lipid kinase 2177782..2178681 Shigella flexneri 5 str. 8401 4206988 YP_689574.1 CDS gatR NC_008258.1 2178763 2179536 R Code: KG; COG: COG1349; galactitol utilization operon repressor complement(2178763..2179536) Shigella flexneri 5 str. 8401 4206989 YP_689575.1 CDS gatC NC_008258.1 2180730 2182085 R Code: G; COG: COG3775; PTS system galactitol-specific enzyme IIC complement(2180730..2182085) Shigella flexneri 5 str. 8401 4207157 YP_689576.1 CDS gatB NC_008258.1 2182089 2182373 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(2182089..2182373) Shigella flexneri 5 str. 8401 4207158 YP_689577.1 CDS gatZ NC_008258.1 2182866 2184128 R Code: G; COG: COG4573; tagatose 6-phosphate kinase 1 complement(2182866..2184128) Shigella flexneri 5 str. 8401 4207160 YP_689578.2 CDS gatY NC_008258.1 2184157 2185011 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(2184157..2185011) Shigella flexneri 5 str. 8401 4207161 YP_689579.1 CDS SFV_2152 NC_008258.1 2185319 2186371 R catalyzes the formation of glycerone phosphate and D-glyceraldehyde 3-phosphate from D-fructose 1,6-bisphosphate; fructose-bisphosphate aldolase complement(2185319..2186371) Shigella flexneri 5 str. 8401 4207162 YP_689580.1 CDS yegT NC_008258.1 2186628 2187905 D Code: GEPR; COG: COG0477; nucleoside permease 2186628..2187905 Shigella flexneri 5 str. 8401 4207163 YP_689581.1 CDS SFV_2155 NC_008258.1 2188902 2189867 D Code: G; COG: COG0524; kinase 2188902..2189867 Shigella flexneri 5 str. 8401 4207165 YP_689582.1 CDS yegW NC_008258.1 2189841 2190587 R transcriptional regulator complement(2189841..2190587) Shigella flexneri 5 str. 8401 4207166 YP_689583.1 CDS yegX NC_008258.1 2190635 2191456 R Code: M; COG: COG3757; hypothetical protein complement(2190635..2191456) Shigella flexneri 5 str. 8401 4207167 YP_689584.1 CDS thiD NC_008258.1 2191521 2192321 R catalyzes the formation of 4-amino-2-methyl-5-diphosphomethylpyrimidine; phosphomethylpyrimidine kinase complement(2191521..2192321) Shigella flexneri 5 str. 8401 4207168 YP_689585.1 CDS thiM NC_008258.1 2192318 2193106 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(2192318..2193106) Shigella flexneri 5 str. 8401 4207169 YP_689586.1 CDS yohL NC_008258.1 2193329 2193601 R Code: S; COG: COG1937; hypothetical protein complement(2193329..2193601) Shigella flexneri 5 str. 8401 4207170 YP_689587.1 CDS yohM NC_008258.1 2193723 2194571 D membrane protein conferring nickel and cobalt resistance; nickel/cobalt efflux protein RcnA 2193723..2194571 Shigella flexneri 5 str. 8401 4207171 YP_689588.1 CDS SFV_2162 NC_008258.1 2194790 2195128 D Code: S; COG: COG5455; hypothetical protein 2194790..2195128 Shigella flexneri 5 str. 8401 4207172 YP_689589.1 CDS yehA NC_008258.1 2195428 2196243 R type-1 fimbrial protein complement(2195428..2196243) Shigella flexneri 5 str. 8401 4207173 YP_689590.1 CDS yehB NC_008258.1 2196259 2198739 R Code: NU; COG: COG3188; outer membrane protein complement(2196259..2198739) Shigella flexneri 5 str. 8401 4207174 YP_689591.1 CDS yehC NC_008258.1 2198755 2199318 R Code: NU; COG: COG3121; chaperone complement(2198755..2199318) Shigella flexneri 5 str. 8401 4207175 YP_689592.1 CDS insB NC_008258.1 2199377 2199880 R Code: L; COG: COG1662; IS1 ORF2 complement(2199377..2199880) Shigella flexneri 5 str. 8401 4208440 YP_689593.1 CDS SFV_2167 NC_008258.1 2199955 2200188 D IS1 encoded protein 2199955..2200188 Shigella flexneri 5 str. 8401 4208441 YP_689594.1 CDS yehD NC_008258.1 2200287 2200829 R Code: NU; COG: COG3539; fimbrial-like protein complement(2200287..2200829) Shigella flexneri 5 str. 8401 4208442 YP_689595.1 CDS mrp NC_008258.1 2201665 2202774 R Code: D; COG: COG0489; ATPase complement(2201665..2202774) Shigella flexneri 5 str. 8401 4208443 YP_689596.1 CDS metG NC_008258.1 2202906 2204939 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 2202906..2204939 Shigella flexneri 5 str. 8401 4208444 YP_689597.1 CDS SFV_2172 NC_008258.1 2205512 2205637 D IS600 ORF1 2205512..2205637 Shigella flexneri 5 str. 8401 4208446 YP_689598.1 CDS SFV_2173 NC_008258.1 2205778 2206491 D Code: L; COG: COG2801; IS600 ORF2 2205778..2206491 Shigella flexneri 5 str. 8401 4208447 YP_689599.1 CDS SFV_2175 NC_008258.1 2208295 2210139 D molybdate metabolism regulator 2208295..2210139 Shigella flexneri 5 str. 8401 4208449 YP_689600.1 CDS SFV_2176 NC_008258.1 2210149 2211840 D hypothetical protein 2210149..2211840 Shigella flexneri 5 str. 8401 4208450 YP_689601.1 CDS insB NC_008258.1 2211775 2212278 R Code: L; COG: COG1662; IS1 ORF2 complement(2211775..2212278) Shigella flexneri 5 str. 8401 4208451 YP_689602.1 CDS SFV_2178 NC_008258.1 2212353 2212541 D IS1 encoded protein 2212353..2212541 Shigella flexneri 5 str. 8401 4208452 YP_689603.1 CDS yehR NC_008258.1 2212563 2213024 D Code: S; COG: COG4808; hypothetical protein 2212563..2213024 Shigella flexneri 5 str. 8401 4208453 YP_689604.1 CDS yehS NC_008258.1 2213065 2213592 R Code: S; COG: COG4807; hypothetical protein complement(2213065..2213592) Shigella flexneri 5 str. 8401 4208454 YP_689605.1 CDS yehT NC_008258.1 2213582 2214301 R unknown function; when overproduced it confers drug-resistance; two-component response-regulatory protein YehT complement(2213582..2214301) Shigella flexneri 5 str. 8401 4208455 YP_689606.1 CDS yehU NC_008258.1 2214298 2215944 R Code: T; COG: COG3275; 2-component sensor protein complement(2214298..2215944) Shigella flexneri 5 str. 8401 4208456 YP_689607.1 CDS SFV_2183 NC_008258.1 2216191 2217537 D Code: L; COG: COG3385; IS4 orf 2216191..2217537 Shigella flexneri 5 str. 8401 4208457 YP_689608.1 CDS SFV_2184 NC_008258.1 2217935 2218183 D DNA damage-inducible protein 2217935..2218183 Shigella flexneri 5 str. 8401 4208458 YP_689609.1 CDS SFV_2185 NC_008258.1 2218299 2218568 R hypothetical protein complement(2218299..2218568) Shigella flexneri 5 str. 8401 4209327 YP_689610.1 CDS SFV_2186 NC_008258.1 2218637 2219293 D Code: QR; COG: COG0500; prophage protein 2218637..2219293 Shigella flexneri 5 str. 8401 4209328 YP_689611.1 CDS ipaH_5 NC_008258.1 2219609 2221252 D Code: S; COG: COG4886; invasion plasmid antigen 2219609..2221252 Shigella flexneri 5 str. 8401 4209329 YP_689612.1 CDS SFV_2188 NC_008258.1 2221432 2222055 R hypothetical protein complement(2221432..2222055) Shigella flexneri 5 str. 8401 4209330 YP_689613.1 CDS SFV_2189 NC_008258.1 2222006 2223421 R tail fiber protein complement(2222006..2223421) Shigella flexneri 5 str. 8401 4209331 YP_689614.1 CDS SFV_2190 NC_008258.1 2223585 2223986 R tail fiber assembly protein complement(2223585..2223986) Shigella flexneri 5 str. 8401 4209332 YP_689615.1 CDS SFV_2191 NC_008258.1 2223989 2224402 R IS1 encoded protein complement(2223989..2224402) Shigella flexneri 5 str. 8401 4209333 YP_689616.1 CDS insB NC_008258.1 2224638 2225141 D Code: L; COG: COG1662; IS1 ORF2 2224638..2225141 Shigella flexneri 5 str. 8401 4209334 YP_689617.1 CDS SFV_2193 NC_008258.1 2225379 2225849 D Code: NU; COG: COG3539; fimbrial-like protein 2225379..2225849 Shigella flexneri 5 str. 8401 4209335 YP_689618.1 CDS insB NC_008258.1 2225843 2226346 R Code: L; COG: COG1662; IS1 ORF2 complement(2225843..2226346) Shigella flexneri 5 str. 8401 4209336 YP_689619.1 CDS SFV_2196 NC_008258.1 2226574 2227599 R bacteriophage protein complement(2226574..2227599) Shigella flexneri 5 str. 8401 4209338 YP_689620.1 CDS SFV_2195 NC_008258.1 2227466 2227960 D hypothetical protein 2227466..2227960 Shigella flexneri 5 str. 8401 4209337 YP_689621.1 CDS SFV_2197 NC_008258.1 2227985 2228698 R Code: L; COG: COG2801; IS600 ORF2 complement(2227985..2228698) Shigella flexneri 5 str. 8401 4209339 YP_689622.1 CDS SFV_2198 NC_008258.1 2228839 2228964 R IS600 ORF1 complement(2228839..2228964) Shigella flexneri 5 str. 8401 4209340 YP_689623.1 CDS SFV_2199 NC_008258.1 2229207 2230004 D integrase 2229207..2230004 Shigella flexneri 5 str. 8401 4209341 YP_689624.1 CDS SFV_2201 NC_008258.1 2230332 2230658 D Code: L; COG: COG2963; IS629 ORF1 2230332..2230658 Shigella flexneri 5 str. 8401 4209343 YP_689625.1 CDS SFV_2202 NC_008258.1 2230658 2231545 D Code: L; COG: COG2801; IS629 ORF2 2230658..2231545 Shigella flexneri 5 str. 8401 4209344 YP_689626.1 CDS SFV_2203 NC_008258.1 2232103 2232210 D hypothetical protein 2232103..2232210 Shigella flexneri 5 str. 8401 4209345 YP_689627.1 CDS yehW NC_008258.1 2232191 2232922 R Code: E; COG: COG1174; transport system permease complement(2232191..2232922) Shigella flexneri 5 str. 8401 4209346 YP_689628.1 CDS yehX NC_008258.1 2232927 2233853 R Code: E; COG: COG1125; ABC transporter ATP-binding protein complement(2232927..2233853) Shigella flexneri 5 str. 8401 4209503 YP_689629.1 CDS yehY NC_008258.1 2233846 2235003 R Code: E; COG: COG1174; transport system permease complement(2233846..2235003) Shigella flexneri 5 str. 8401 4209504 YP_689630.1 CDS yehZ NC_008258.1 2235010 2235927 R Code: M; COG: COG1732; transport system permease complement(2235010..2235927) Shigella flexneri 5 str. 8401 4209505 YP_689631.1 CDS bglX NC_008258.1 2236179 2238446 R Code: G; COG: COG1472; beta-D-glucoside glucohydrolase complement(2236179..2238446) Shigella flexneri 5 str. 8401 4209506 YP_689632.1 CDS dld NC_008258.1 2238672 2240387 D component of the membrane-bound D-lactate oxidase, FAD-binding, NADH independent; D-lactate dehydrogenase 2238672..2240387 Shigella flexneri 5 str. 8401 4209507 YP_689633.1 CDS pbpG NC_008258.1 2240425 2241357 R specifically hydrolyze the DD-diaminopimelate-alanine bonds in high-molecular-mass murein sacculi; Penicillin-binding protein 7; D-alanyl-D-alanine endopeptidase complement(2240425..2241357) Shigella flexneri 5 str. 8401 4209508 YP_689634.1 CDS yohC NC_008258.1 2241531 2242118 R hypothetical protein complement(2241531..2242118) Shigella flexneri 5 str. 8401 4209509 YP_689635.1 CDS yohD NC_008258.1 2242288 2242866 D Code: S; COG: COG0586; hypothetical protein 2242288..2242866 Shigella flexneri 5 str. 8401 4209510 YP_689636.1 CDS yohG NC_008258.1 2243803 2245329 R may be involved in resistance to puromycin, acriflavine and tetraphenylarsonium chloride; multidrug resistance outer membrane protein MdtQ complement(2243803..2245329) Shigella flexneri 5 str. 8401 4209512 YP_689637.1 CDS yohI NC_008258.1 2245917 2246864 R Code: J; COG: COG0042; tRNA-dihydrouridine synthase C complement(2245917..2246864) Shigella flexneri 5 str. 8401 4209513 YP_689638.1 CDS yohJ NC_008258.1 2247103 2247501 D Code: R; COG: COG1380; hypothetical protein 2247103..2247501 Shigella flexneri 5 str. 8401 4209514 YP_689639.1 CDS yohK NC_008258.1 2247498 2248193 D Code: M; COG: COG1346; hypothetical protein 2247498..2248193 Shigella flexneri 5 str. 8401 4209515 YP_689640.1 CDS cdd NC_008258.1 2248323 2249207 D Reclaims exogenous and endogenous cytidine and 2'-deoxycytidine molecules for UMP synthesis; cytidine deaminase 2248323..2249207 Shigella flexneri 5 str. 8401 4209516 YP_689641.1 CDS sanA NC_008258.1 2249357 2250076 D Code: S; COG: COG2949; hypothetical protein 2249357..2250076 Shigella flexneri 5 str. 8401 4209517 YP_689642.1 CDS SFV_2220 NC_008258.1 2250079 2250318 D hypothetical protein 2250079..2250318 Shigella flexneri 5 str. 8401 4209518 YP_689643.1 CDS SFV_2221 NC_008258.1 2250513 2251751 D function undetermined; similar to glutamate synthase beta subunit and related oxidoreductases which transfer electrons from NADPH to an acceptor protein or protein domain; oxidoreductase 2250513..2251751 Shigella flexneri 5 str. 8401 4209519 YP_689644.1 CDS mglC NC_008258.1 2252994 2254004 R ABC transporter; functions in galactose transport; part of MglA2C2B transporter complex; beta-methylgalactoside transporter inner membrane component complement(2252994..2254004) Shigella flexneri 5 str. 8401 4209521 YP_689645.1 CDS mglA NC_008258.1 2254020 2255504 R with MglBC transports galactose or methyl galactoside into the cell; contains 2 ATP binding domains; galactose/methyl galaxtoside transporter ATP-binding protein complement(2254020..2255504) Shigella flexneri 5 str. 8401 4206744 YP_689646.1 CDS mglB NC_008258.1 2255601 2256599 R Code: G; COG: COG1879; galactose-binding transport protein; receptor for galactose taxis complement(2255601..2256599) Shigella flexneri 5 str. 8401 4206745 YP_689647.1 CDS galS NC_008258.1 2256879 2257919 R negative regulator of the mglBAC operon for galactose utilization; DNA-binding transcriptional regulator GalS complement(2256879..2257919) Shigella flexneri 5 str. 8401 4206746 YP_689648.1 CDS yeiB NC_008258.1 2258061 2259137 R Code: S; COG: COG2311; hypothetical protein complement(2258061..2259137) Shigella flexneri 5 str. 8401 4206747 YP_689649.1 CDS folE NC_008258.1 2259154 2259822 R 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 complement(2259154..2259822) Shigella flexneri 5 str. 8401 4206748 YP_689650.1 CDS yeiG NC_008258.1 2260080 2260916 D Code: R; COG: COG0627; esterase 2260080..2260916 Shigella flexneri 5 str. 8401 4206749 YP_689651.1 CDS cirA NC_008258.1 2260948 2262939 R Cir; FeuA; CirA; receptor protein for siderophores (colicin IA, IB and V) and microcins (E492, H47, and M); TonB-dependent; able to transport monomers, dimer, and linear trimers of 2,3-dihydorxybenzoylserine; outer membrane protein; colicin I receptor complement(2260948..2262939) Shigella flexneri 5 str. 8401 4206750 YP_689652.1 CDS lysP NC_008258.1 2263231 2264631 R Code: E; COG: COG0833; lysine transporter complement(2263231..2264631) Shigella flexneri 5 str. 8401 4206751 YP_689653.1 CDS yeiE NC_008258.1 2264906 2265712 R Code: K; COG: COG0583; DNA-binding transcriptional regulator complement(2264906..2265712) Shigella flexneri 5 str. 8401 4206752 YP_689654.1 CDS yeiH NC_008258.1 2265886 2266935 D Code: S; COG: COG2855; hypothetical protein 2265886..2266935 Shigella flexneri 5 str. 8401 4206753 YP_689655.1 CDS nfo NC_008258.1 2267009 2267866 D 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 2267009..2267866 Shigella flexneri 5 str. 8401 4206754 YP_689656.1 CDS yeiI NC_008258.1 2267869 2268957 D Code: G; COG: COG0524; hypothetical protein 2267869..2268957 Shigella flexneri 5 str. 8401 4206755 YP_689657.1 CDS yeiJ NC_008258.1 2269013 2270263 R Code: F; COG: COG1972; transport system permease complement(2269013..2270263) Shigella flexneri 5 str. 8401 4206756 YP_689658.1 CDS rihB NC_008258.1 2270363 2271304 R Hydrolyzes cytidine or uridine to ribose and cytosine or uracil, respectively; ribonucleoside hydrolase 2 complement(2270363..2271304) Shigella flexneri 5 str. 8401 4206757 YP_689659.1 CDS yeiL NC_008258.1 2271474 2272133 D activator of nucleoside metabolism; DNA-binding transcriptional activator YeiL 2271474..2272133 Shigella flexneri 5 str. 8401 4206758 YP_689660.1 CDS yeiM NC_008258.1 2272204 2273454 R Code: F; COG: COG1972; transport system permease complement(2272204..2273454) Shigella flexneri 5 str. 8401 4206759 YP_689661.1 CDS yeiN NC_008258.1 2273548 2274486 R Code: Q; COG: COG2313; hypothetical protein complement(2273548..2274486) Shigella flexneri 5 str. 8401 4206760 YP_689662.1 CDS yeiC NC_008258.1 2274474 2275415 R Code: G; COG: COG0524; hypothetical protein complement(2274474..2275415) Shigella flexneri 5 str. 8401 4206761 YP_689663.1 CDS fruA NC_008258.1 2275839 2277530 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 fructose-specific transporter subunits IIBC complement(2275839..2277530) Shigella flexneri 5 str. 8401 4206762 YP_689664.1 CDS fruK NC_008258.1 2277547 2278485 R 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 complement(2277547..2278485) Shigella flexneri 5 str. 8401 4206763 YP_689665.1 CDS fruB NC_008258.1 2278485 2279615 R 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; bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein complement(2278485..2279615) Shigella flexneri 5 str. 8401 4207566 YP_689666.1 CDS yeiO NC_008258.1 2279983 2281161 D Code: GEPR; COG: COG0477; transport 2279983..2281161 Shigella flexneri 5 str. 8401 4207567 YP_689667.1 CDS insB NC_008258.1 2281155 2281550 R Code: L; COG: COG1662; IS1 ORF2 complement(2281155..2281550) Shigella flexneri 5 str. 8401 4207568 YP_689668.1 CDS insA NC_008258.1 2281577 2281852 R Code: L; COG: COG3677; IS1 ORF1 complement(2281577..2281852) Shigella flexneri 5 str. 8401 4207570 YP_689669.1 CDS SFV_2247 NC_008258.1 2281733 2281930 D IS1 encoded protein 2281733..2281930 Shigella flexneri 5 str. 8401 4207569 YP_689670.1 CDS yeiP NC_008258.1 2282091 2282918 D 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 2282091..2282918 Shigella flexneri 5 str. 8401 4207571 YP_689671.1 CDS yeiQ NC_008258.1 2283132 2284607 D Code: G; COG: COG0246; oxidoreductase 2283132..2284607 Shigella flexneri 5 str. 8401 4207572 YP_689672.1 CDS yeiR NC_008258.1 2284725 2285711 D Code: R; COG: COG0523; hypothetical protein 2284725..2285711 Shigella flexneri 5 str. 8401 4207573 YP_689673.1 CDS SFV_2252 NC_008258.1 2285714 2286463 D Code: I; COG: COG0671; hypothetical protein 2285714..2286463 Shigella flexneri 5 str. 8401 4207574 YP_689674.1 CDS spr NC_008258.1 2286875 2287441 D by similarity, Spr seems to have peptidase activity; involved in thermoresistance; outer membrane lipoprotein 2286875..2287441 Shigella flexneri 5 str. 8401 4207575 YP_689675.1 CDS rtn NC_008258.1 2287685 2289178 D hypothetical protein 2287685..2289178 Shigella flexneri 5 str. 8401 4207576 YP_689676.1 CDS yejA NC_008258.1 2289260 2291074 D Code: E; COG: COG4166; hypothetical protein 2289260..2291074 Shigella flexneri 5 str. 8401 4207577 YP_689677.1 CDS yejB NC_008258.1 2291075 2292169 D Code: R; COG: COG4174; transport system permease 2291075..2292169 Shigella flexneri 5 str. 8401 4207578 YP_689678.1 CDS yejE NC_008258.1 2292169 2293194 D Code: R; COG: COG4239; transport system permease 2292169..2293194 Shigella flexneri 5 str. 8401 4207579 YP_689679.1 CDS yejF NC_008258.1 2293196 2294785 D Code: R; COG: COG4172; ABC transporter ATP-binding protein 2293196..2294785 Shigella flexneri 5 str. 8401 4207580 YP_689680.1 CDS yejG NC_008258.1 2294789 2295133 R hypothetical protein complement(2294789..2295133) Shigella flexneri 5 str. 8401 4207581 YP_689681.1 CDS bcr NC_008258.1 2295466 2296656 R Involved in sulfonamide (sulfathiazole) and bicyclomycin resistance; bicyclomycin/multidrug efflux system complement(2295466..2296656) Shigella flexneri 5 str. 8401 4207582 YP_689682.1 CDS rsuA NC_008258.1 2296684 2297475 R catalyzes the synthesis pseudouridine from uracil-516 in 16S ribosomal RNA; 16S rRNA pseudouridylate synthase A complement(2296684..2297475) Shigella flexneri 5 str. 8401 4207583 YP_689683.1 CDS yejH NC_008258.1 2297529 2299289 D Code: KL; COG: COG1061; ATP-dependent helicase 2297529..2299289 Shigella flexneri 5 str. 8401 4207584 YP_689684.2 CDS rplY NC_008258.1 2299414 2299698 D 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 2299414..2299698 Shigella flexneri 5 str. 8401 4210973 YP_689685.1 CDS yejK NC_008258.1 2299837 2300844 R Code: R; COG: COG3081; nucleoid-associated protein NdpA complement(2299837..2300844) Shigella flexneri 5 str. 8401 4210974 YP_689686.1 CDS yejL NC_008258.1 2301026 2301253 D Code: S; COG: COG3082; hypothetical protein 2301026..2301253 Shigella flexneri 5 str. 8401 4210975 YP_689687.1 CDS yejM NC_008258.1 2301273 2303033 D Code: R; COG: COG3083; sulfatase 2301273..2303033 Shigella flexneri 5 str. 8401 4210976 YP_689688.1 CDS yejO NC_008258.1 2303287 2305878 R Code: MU; COG: COG3468; ABC transporter ATP-binding protein complement(2303287..2305878) Shigella flexneri 5 str. 8401 4210978 YP_689689.1 CDS narP NC_008258.1 2306198 2306845 D 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 2306198..2306845 Shigella flexneri 5 str. 8401 4210979 YP_689690.1 CDS ccmH NC_008258.1 2307056 2308108 R Code: O; COG: COG4235; subunit of heme lyase complement(2307056..2308108) Shigella flexneri 5 str. 8401 4210980 YP_689691.1 CDS dsbE NC_008258.1 2308105 2308662 R Code: OC; COG: COG0526; disulfide oxidoreductase complement(2308105..2308662) Shigella flexneri 5 str. 8401 4210981 YP_689692.1 CDS ccmF NC_008258.1 2308659 2310602 R Code: O; COG: COG1138; cytochrome c-type biogenesis protein complement(2308659..2310602) Shigella flexneri 5 str. 8401 4210982 YP_689693.1 CDS ccmE NC_008258.1 2310599 2311078 R 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 complement(2310599..2311078) Shigella flexneri 5 str. 8401 4210983 YP_689694.1 CDS ccmD NC_008258.1 2311075 2311284 R Code: U; COG: COG3114; heme exporter protein C complement(2311075..2311284) Shigella flexneri 5 str. 8401 4210984 YP_689695.1 CDS ccmC NC_008258.1 2311281 2312042 R Code: O; COG: COG0755; heme exporter protein C complement(2311281..2312042) Shigella flexneri 5 str. 8401 4210985 YP_689696.1 CDS ccmB NC_008258.1 2312060 2312722 R Code: O; COG: COG2386; heme exporter protein B, cytochrome c-type biogenesis protein complement(2312060..2312722) Shigella flexneri 5 str. 8401 4210986 YP_689697.1 CDS ccmA NC_008258.1 2312719 2313342 R ATP-binding protein; required for proper cytochrome c maturation; cytochrome c biogenesis protein CcmA complement(2312719..2313342) Shigella flexneri 5 str. 8401 4210987 YP_689698.1 CDS napC NC_008258.1 2313355 2313957 R with NapABDFGH functions as a nitrate reductase; NapC functions as an electron shuttle between NapAB and NapGH or quinone; cytochrome c-type protein NapC complement(2313355..2313957) Shigella flexneri 5 str. 8401 4210988 YP_689699.1 CDS napB NC_008258.1 2313967 2314416 R small subunit of periplasmic nitrate reductase; receives electrons from the membrane-bound NapC and passes them to NapA; citrate reductase cytochrome c-type subunit complement(2313967..2314416) Shigella flexneri 5 str. 8401 4210989 YP_689700.1 CDS napH NC_008258.1 2314413 2315276 R part of NapHG quinol dehydrogenase; couples electron transfer from ubiquinone-ubiquinol couple via NapC/B to NapA; quinol dehydrogenase membrane component complement(2314413..2315276) Shigella flexneri 5 str. 8401 4210990 YP_689701.1 CDS napG NC_008258.1 2315263 2315958 R 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 complement(2315263..2315958) Shigella flexneri 5 str. 8401 4210991 YP_689702.1 CDS napA NC_008258.1 2315965 2318451 R periplasmic; catalytic subunit; with NapBC catalyzes the reduction of nitrate to nitrite; NapAB receives electrons from NapC; nitrate reductase catalytic subunit complement(2315965..2318451) Shigella flexneri 5 str. 8401 4210767 YP_689703.1 CDS napD NC_008258.1 2318448 2318711 R Code: P; COG: COG3062; assembly protein for periplasmic nitrate reductase complement(2318448..2318711) Shigella flexneri 5 str. 8401 4210768 YP_689704.1 CDS eco NC_008258.1 2319603 2320091 D serine protease inhibitor, inhibits trypsin and other proteases; ecotin 2319603..2320091 Shigella flexneri 5 str. 8401 4210769 YP_689705.1 CDS yojI NC_008258.1 2322083 2323726 R efflux pump for the antibacterial peptide microcin J25; multidrug transporter membrane component/ATP-binding protein complement(2322083..2323726) Shigella flexneri 5 str. 8401 4210771 YP_689706.1 CDS alkB NC_008258.1 2323802 2324452 R Code: L; COG: COG3145; alkylated DNA repair protein complement(2323802..2324452) Shigella flexneri 5 str. 8401 4210772 YP_689707.1 CDS ada NC_008258.1 2324452 2325516 R O6-methylguanine-DNA methyltransferase; transcription activator/repressor complement(2324452..2325516) Shigella flexneri 5 str. 8401 4210773 YP_689708.1 CDS yojL NC_008258.1 2325590 2326645 R 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 complement(2325590..2326645) Shigella flexneri 5 str. 8401 4210774 YP_689709.1 CDS ompC NC_008258.1 2326757 2327878 R allows for ions and hydrophilic solutes to cross the outer membrane; porin complement(2326757..2327878) Shigella flexneri 5 str. 8401 4210775 YP_689710.1 CDS yojN NC_008258.1 2328709 2331288 D Code: T; COG: COG0642; phosphotransfer intermediate protein in two-component regulatory system with RcsBC 2328709..2331288 Shigella flexneri 5 str. 8401 4210776 YP_689711.1 CDS rcsB NC_008258.1 2331305 2331955 D two-component response regulator RscB regulates the genes involved in capsule biosynthesis and cell division; probably phosphorylated by RcsC or RcsF; transcriptional regulator RcsB 2331305..2331955 Shigella flexneri 5 str. 8401 4210777 YP_689712.1 CDS rcsC NC_008258.1 2332155 2335004 R Code: T; COG: COG0642; hybrid sensory kinase in two-component regulatory system with RcsB and YojN complement(2332155..2335004) Shigella flexneri 5 str. 8401 4210778 YP_689713.1 CDS SFV_2294 NC_008258.1 2335279 2336055 R Code: S; COG: COG4676; hypothetical protein complement(2335279..2336055) Shigella flexneri 5 str. 8401 4210779 YP_689714.1 CDS SFV_2295 NC_008258.1 2336060 2337631 R Code: S; COG: COG5445; hypothetical protein complement(2336060..2337631) Shigella flexneri 5 str. 8401 4210780 YP_689715.1 CDS SFV_2296 NC_008258.1 2339983 2340822 R Code: L; COG: COG2801; IS911 ORF2 complement(2339983..2340822) Shigella flexneri 5 str. 8401 4210781 YP_689716.1 CDS SFV_2297 NC_008258.1 2340849 2341151 R Code: L; COG: COG2963; IS911 ORF1 complement(2340849..2341151) Shigella flexneri 5 str. 8401 4210782 YP_689717.1 CDS SFV_2299 NC_008258.1 2343500 2344123 R Code: S; COG: COG3234; hypothetical protein complement(2343500..2344123) Shigella flexneri 5 str. 8401 4210784 YP_689718.1 CDS SFV_2300 NC_008258.1 2344120 2345241 R Code: S; COG: COG4685; hypothetical protein complement(2344120..2345241) Shigella flexneri 5 str. 8401 4210785 YP_689719.1 CDS SFV_2301 NC_008258.1 2345302 2345808 R hypothetical protein complement(2345302..2345808) Shigella flexneri 5 str. 8401 4211102 YP_689720.1 CDS gyrA NC_008258.1 2345957 2348584 R negatively supercoils closed circular double-stranded DNA; DNA gyrase subunit A complement(2345957..2348584) Shigella flexneri 5 str. 8401 4211103 YP_689721.1 CDS ubiG NC_008258.1 2348731 2349453 D Involved in ubiquinone biosynthesis; 3-demethylubiquinone-9 3-methyltransferase 2348731..2349453 Shigella flexneri 5 str. 8401 4211104 YP_689722.1 CDS SFV_2304 NC_008258.1 2353250 2353615 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 2353250..2353615 Shigella flexneri 5 str. 8401 4211105 YP_689723.2 CDS SFV_2305 NC_008258.1 2353573 2354478 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 2353573..2354478 Shigella flexneri 5 str. 8401 4211106 YP_689724.1 CDS nrdA NC_008258.1 2355365 2357650 D Catalyzes the rate-limiting step in dNTP synthesis; ribonucleotide-diphosphate reductase subunit alpha 2355365..2357650 Shigella flexneri 5 str. 8401 4211108 YP_689725.1 CDS nrdB NC_008258.1 2357653 2359014 D 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 2357653..2359014 Shigella flexneri 5 str. 8401 4211109 YP_689726.1 CDS yfaE NC_008258.1 2359014 2359268 D 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 2359014..2359268 Shigella flexneri 5 str. 8401 4211110 YP_689727.1 CDS inaA NC_008258.1 2359322 2359972 R hypothetical protein complement(2359322..2359972) Shigella flexneri 5 str. 8401 4211111 YP_689728.1 CDS glpQ NC_008258.1 2360435 2361511 R hydrolyzes deacylated phospholipids to glycerol 3-phosphate and the corresponding alcohols; periplasmic; glycerophosphodiester phosphodiesterase complement(2360435..2361511) Shigella flexneri 5 str. 8401 4211112 YP_689729.1 CDS glpT NC_008258.1 2361516 2362874 R 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 complement(2361516..2362874) Shigella flexneri 5 str. 8401 4211113 YP_689730.1 CDS glpA NC_008258.1 2363147 2364775 D anaerobic, catalyzes the conversion of glycerol 3-phosphate to dihydroxyacetone using fumarate or nitrate as electron acceptor; sn-glycerol-3-phosphate dehydrogenase subunit A 2363147..2364775 Shigella flexneri 5 str. 8401 4211114 YP_689731.1 CDS glpB NC_008258.1 2364765 2366024 D 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 2364765..2366024 Shigella flexneri 5 str. 8401 4211115 YP_689732.1 CDS glpC NC_008258.1 2366021 2367211 D anaerobic; with GlpAB catalyzes the conversion of glycerol-3-phosphate to dihydroxyacetone phosphate; sn-glycerol-3-phosphate dehydrogenase subunit C 2366021..2367211 Shigella flexneri 5 str. 8401 4211116 YP_689733.1 CDS yfaD NC_008258.1 2367404 2368354 D Code: S; COG: COG5464; hypothetical protein 2367404..2368354 Shigella flexneri 5 str. 8401 4211117 YP_689734.1 CDS SFV_2317 NC_008258.1 2368395 2368907 R hypothetical protein complement(2368395..2368907) Shigella flexneri 5 str. 8401 4211118 YP_689735.1 CDS SFV_2318 NC_008258.1 2368920 2369249 R hypothetical protein complement(2368920..2369249) Shigella flexneri 5 str. 8401 4211119 YP_689736.1 CDS SFV_2319 NC_008258.1 2369331 2370122 R Code: R; COG: COG1058; hypothetical protein complement(2369331..2370122) Shigella flexneri 5 str. 8401 4211120 YP_689737.1 CDS SFV_2320 NC_008258.1 2370209 2370751 R hypothetical protein complement(2370209..2370751) Shigella flexneri 5 str. 8401 4211121 YP_689738.1 CDS yfaO NC_008258.1 2370946 2371455 D Code: LR; COG: COG0494; hypothetical protein 2370946..2371455 Shigella flexneri 5 str. 8401 4210268 YP_689739.1 CDS ais NC_008258.1 2371494 2372153 R protein induced by aluminum complement(2371494..2372153) Shigella flexneri 5 str. 8401 4210269 YP_689740.1 CDS SFV_2323 NC_008258.1 2372404 2373543 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 2372404..2373543 Shigella flexneri 5 str. 8401 4210270 YP_689741.1 CDS SFV_2324 NC_008258.1 2373547 2374515 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 2373547..2374515 Shigella flexneri 5 str. 8401 4210271 YP_689742.1 CDS SFV_2325 NC_008258.1 2374515 2376497 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 2374515..2376497 Shigella flexneri 5 str. 8401 4210272 YP_689743.1 CDS SFV_2326 NC_008258.1 2376494 2377384 D Code: G; COG: COG0726; hypothetical protein 2376494..2377384 Shigella flexneri 5 str. 8401 4210273 YP_689744.2 CDS arnT NC_008258.1 2377384 2379036 D catalyzes the addition of 4-amino-4-deoxy-L-arabinose to lipid A; 4-amino-4-deoxy-L-arabinose transferase 2377384..2379036 Shigella flexneri 5 str. 8401 4210274 YP_689745.1 CDS SFV_2328 NC_008258.1 2379033 2379368 D Code: GER; COG: COG0697; sucrose-6 phosphate hydrolase 2379033..2379368 Shigella flexneri 5 str. 8401 4210275 YP_689746.1 CDS SFV_2329 NC_008258.1 2379368 2379754 D hypothetical protein 2379368..2379754 Shigella flexneri 5 str. 8401 4210276 YP_689747.1 CDS menE NC_008258.1 2380125 2381480 R Code: IQ; COG: COG0318; O-succinylbenzoic acid--CoA ligase complement(2380125..2381480) Shigella flexneri 5 str. 8401 4210278 YP_689748.1 CDS menC NC_008258.1 2381477 2382403 R catalyzes the dehydration of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylic acid to form O-succinylbenzoate; O-succinylbenzoate synthase complement(2381477..2382403) Shigella flexneri 5 str. 8401 4210279 YP_689749.1 CDS menB NC_008258.1 2382439 2383296 R catalyzes the formation of 1,4-dihydroxy-2-naphthoate from O-succinylbenzoyl-CoA; naphthoate synthase complement(2382439..2383296) Shigella flexneri 5 str. 8401 4210280 YP_689750.1 CDS yfbB NC_008258.1 2383311 2384069 R catalyzes the hydrolysis of the thioester bond in palmitoyl-CoA; acyl-CoA thioester hydrolase complement(2383311..2384069) Shigella flexneri 5 str. 8401 4210281 YP_689751.1 CDS menD NC_008258.1 2384066 2385925 R 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(2384066..2385925) Shigella flexneri 5 str. 8401 4210282 YP_689752.1 CDS menF NC_008258.1 2385825 2387120 R Code: HQ; COG: COG1169; menaquinone-specific isochorismate synthase complement(2385825..2387120) Shigella flexneri 5 str. 8401 4210283 YP_689753.1 CDS elaB NC_008258.1 2387199 2387504 R Code: S; COG: COG4575; hypothetical protein complement(2387199..2387504) Shigella flexneri 5 str. 8401 4210284 YP_689754.1 CDS elaA NC_008258.1 2387559 2388020 R Code: R; COG: COG2153; hypothetical protein complement(2387559..2388020) Shigella flexneri 5 str. 8401 4210285 YP_689755.1 CDS elaC NC_008258.1 2388067 2389002 D member of metallo-beta-lactamase; 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 2388067..2389002 Shigella flexneri 5 str. 8401 4210286 YP_689756.1 CDS SFV_2340 NC_008258.1 2389357 2389557 R IS1 encoded protein complement(2389357..2389557) Shigella flexneri 5 str. 8401 4210933 YP_689757.1 CDS insB NC_008258.1 2389632 2390135 D Code: L; COG: COG1662; IS1 ORF2 2389632..2390135 Shigella flexneri 5 str. 8401 4210934 YP_689758.1 CDS yfbM NC_008258.1 2390219 2390647 D hypothetical protein 2390219..2390647 Shigella flexneri 5 str. 8401 4210935 YP_689759.1 CDS nuoN NC_008258.1 2390714 2391991 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit N complement(2390714..2391991) Shigella flexneri 5 str. 8401 4210936 YP_689760.1 CDS nuoM NC_008258.1 2392178 2393707 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit M complement(2392178..2393707) Shigella flexneri 5 str. 8401 4210937 YP_689761.1 CDS nuoL NC_008258.1 2393871 2395712 R Catalyzes the transfer of electrons from NADH to ubiquinone; NADH dehydrogenase subunit L complement(2393871..2395712) Shigella flexneri 5 str. 8401 4210938 YP_689762.1 CDS nuoK NC_008258.1 2395709 2396011 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit K complement(2395709..2396011) Shigella flexneri 5 str. 8401 4210939 YP_689763.1 CDS nuoJ NC_008258.1 2396008 2396562 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit J complement(2396008..2396562) Shigella flexneri 5 str. 8401 4210940 YP_689764.1 CDS nuoI NC_008258.1 2396574 2397116 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit I complement(2396574..2397116) Shigella flexneri 5 str. 8401 4210941 YP_689765.1 CDS nuoH NC_008258.1 2397131 2398108 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit H complement(2397131..2398108) Shigella flexneri 5 str. 8401 4210942 YP_689766.1 CDS nuoG NC_008258.1 2398105 2400831 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit G complement(2398105..2400831) Shigella flexneri 5 str. 8401 4210943 YP_689767.1 CDS nuoF NC_008258.1 2400884 2402221 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(2400884..2402221) Shigella flexneri 5 str. 8401 4210944 YP_689768.1 CDS nuoE NC_008258.1 2402218 2402718 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit E complement(2402218..2402718) Shigella flexneri 5 str. 8401 4210945 YP_689769.1 CDS nuoC NC_008258.1 2402721 2404511 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; bifunctional NADH:ubiquinone oxidoreductase subunit C/D complement(2402721..2404511) Shigella flexneri 5 str. 8401 4210946 YP_689770.1 CDS nuoB NC_008258.1 2404617 2405279 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(2404617..2405279) Shigella flexneri 5 str. 8401 4210947 YP_689771.1 CDS nuoA NC_008258.1 2405295 2405738 R Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit A complement(2405295..2405738) Shigella flexneri 5 str. 8401 4210948 YP_689772.1 CDS lrhA NC_008258.1 2406370 2407308 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(2406370..2407308) Shigella flexneri 5 str. 8401 4210949 YP_689773.1 CDS SFV_2357 NC_008258.1 2408233 2409450 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 2408233..2409450 Shigella flexneri 5 str. 8401 4210950 YP_689774.1 CDS SFV_2358 NC_008258.1 2409534 2410133 D Code: R; COG: COG1896; hypothetical protein 2409534..2410133 Shigella flexneri 5 str. 8401 4210951 YP_689775.1 CDS yfbS NC_008258.1 2410192 2411949 R Code: P; COG: COG0471; transport protein complement(2410192..2411949) Shigella flexneri 5 str. 8401 4210952 YP_689776.1 CDS yfbT NC_008258.1 2412111 2412761 R Code: R; COG: COG0637; phosphatase complement(2412111..2412761) Shigella flexneri 5 str. 8401 4207024 YP_689777.1 CDS SFV_2361 NC_008258.1 2412772 2413266 R Code: S; COG: COG3013; hypothetical protein complement(2412772..2413266) Shigella flexneri 5 str. 8401 4207025 YP_689778.1 CDS SFV_2362 NC_008258.1 2413349 2413804 R Code: S; COG: COG3092; hypothetical protein complement(2413349..2413804) Shigella flexneri 5 str. 8401 4207026 YP_689779.1 CDS ackA NC_008258.1 2414142 2415344 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 2414142..2415344 Shigella flexneri 5 str. 8401 4207027 YP_689780.1 CDS pta NC_008258.1 2415419 2417563 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 2415419..2417563 Shigella flexneri 5 str. 8401 4207028 YP_689781.1 CDS yfcC NC_008258.1 2417795 2419273 D Code: S; COG: COG1288; hypothetical protein 2417795..2419273 Shigella flexneri 5 str. 8401 4207029 YP_689782.1 CDS SFV_2366 NC_008258.1 2419306 2419848 R Code: LR; COG: COG0494; regulator complement(2419306..2419848) Shigella flexneri 5 str. 8401 4207030 YP_689783.1 CDS yfcE NC_008258.1 2419906 2420457 R Code: R; COG: COG0622; phosphodiesterase complement(2419906..2420457) Shigella flexneri 5 str. 8401 4207031 YP_689784.1 CDS yfcF NC_008258.1 2420513 2421157 R Code: O; COG: COG0625; hypothetical protein complement(2420513..2421157) Shigella flexneri 5 str. 8401 4207032 YP_689785.1 CDS yfcG NC_008258.1 2421293 2421940 D Code: O; COG: COG0625; glutathione S-transferase 2421293..2421940 Shigella flexneri 5 str. 8401 4207033 YP_689786.1 CDS folX NC_008258.1 2421997 2422359 D catalyzes the formation of dihydromonapterin triphosphate from dihydroneopterin triphosphate; D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase 2421997..2422359 Shigella flexneri 5 str. 8401 4207034 YP_689787.1 CDS SFV_2371 NC_008258.1 2422380 2423273 D Code: R; COG: COG1090; sugar nucleotide epimerase 2422380..2423273 Shigella flexneri 5 str. 8401 4207035 YP_689788.1 CDS yfcI NC_008258.1 2423321 2424211 R Code: S; COG: COG5464; hypothetical protein complement(2423321..2424211) Shigella flexneri 5 str. 8401 4207036 YP_689789.1 CDS hisP NC_008258.1 2424408 2425181 R Code: E; COG: COG4598; histidine/lysine/arginine/ornithine transporter subunit complement(2424408..2425181) Shigella flexneri 5 str. 8401 4207037 YP_689790.1 CDS hisM NC_008258.1 2425189 2425905 R Code: E; COG: COG4160; histidine transport, membrane protein M complement(2425189..2425905) Shigella flexneri 5 str. 8401 4207038 YP_689791.1 CDS hisQ NC_008258.1 2425902 2426588 R Code: E; COG: COG4215; histidine transport system permease complement(2425902..2426588) Shigella flexneri 5 str. 8401 4207039 YP_689792.1 CDS hisJ NC_008258.1 2426678 2427460 R Code: ET; COG: COG0834; histidine-binding periplasmic protein of high-affinity histidine transport system complement(2426678..2427460) Shigella flexneri 5 str. 8401 4207040 YP_689793.1 CDS argT NC_008258.1 2427681 2428382 R Code: ET; COG: COG0834; lysine-, arginine-, ornithine-binding periplasmic protein complement(2427681..2428382) Shigella flexneri 5 str. 8401 4207041 YP_689794.2 CDS SFV_2378 NC_008258.1 2428367 2429272 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(2428367..2429272) Shigella flexneri 5 str. 8401 4207042 YP_689795.1 CDS SFV_2379 NC_008258.1 2429230 2429640 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(2429230..2429640) Shigella flexneri 5 str. 8401 4206879 YP_689796.1 CDS ubiX NC_008258.1 2430065 2430634 R catalyzes the formation of 2-octaprenylphenol from 3-octaprenyl-4-hydroxybenzoate; 3-octaprenyl-4-hydroxybenzoate carboxy-lyase complement(2430065..2430634) Shigella flexneri 5 str. 8401 4206880 YP_689797.1 CDS purF NC_008258.1 2430730 2432247 R Catalyzes first step of the de novo purine nucleotide biosynthetic pathway; amidophosphoribosyltransferase complement(2430730..2432247) Shigella flexneri 5 str. 8401 4206881 YP_689798.1 CDS cvpA NC_008258.1 2432284 2432772 R membrane protein required for colicin V production; colicin V production protein complement(2432284..2432772) Shigella flexneri 5 str. 8401 4206882 YP_689799.1 CDS dedD NC_008258.1 2433031 2433693 R Code: S; COG: COG3147; hypothetical protein complement(2433031..2433693) Shigella flexneri 5 str. 8401 4206883 YP_689800.1 CDS folC NC_008258.1 2433683 2434951 R Code: H; COG: COG0285; bifunctional folylpolyglutamate synthase/ dihydrofolate synthase complement(2433683..2434951) Shigella flexneri 5 str. 8401 4206884 YP_689801.1 CDS accD NC_008258.1 2435021 2435935 R catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer of AccA2D2 subunits; acetyl-CoA carboxylase subunit beta complement(2435021..2435935) Shigella flexneri 5 str. 8401 4206885 YP_689802.1 CDS dedA NC_008258.1 2436091 2436750 R Code: S; COG: COG0586; hypothetical protein complement(2436091..2436750) Shigella flexneri 5 str. 8401 4206886 YP_689803.1 CDS truA NC_008258.1 2436833 2437645 R mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability; tRNA pseudouridine synthase A complement(2436833..2437645) Shigella flexneri 5 str. 8401 4206887 YP_689804.1 CDS usg NC_008258.1 2437645 2438658 R Code: E; COG: COG0136; semialdehyde dehydrogenase complement(2437645..2438658) Shigella flexneri 5 str. 8401 4206888 YP_689805.1 CDS pdxB NC_008258.1 2438724 2439860 R Code: HE; COG: COG0111; erythronate-4-phosphate dehydrogenase complement(2438724..2439860) Shigella flexneri 5 str. 8401 4206889 YP_689806.1 CDS flk NC_008258.1 2439959 2440954 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 2439959..2440954 Shigella flexneri 5 str. 8401 4206890 YP_689807.1 CDS SFV_2391 NC_008258.1 2440951 2442129 R Code: GEPR; COG: COG0477; hypothetical protein complement(2440951..2442129) Shigella flexneri 5 str. 8401 4206891 YP_689808.1 CDS fabB NC_008258.1 2442384 2443496 R Code: IQ; COG: COG0304; 3-oxoacyl-ACP synthase complement(2442384..2443496) Shigella flexneri 5 str. 8401 4206892 YP_689809.1 CDS mnmC NC_008258.1 2443784 2445790 D catalyzes the formation of 5-methylaminomethyl-2-thiouridine in position 34 of the anticodon of tRNA molecules; 5-methylaminomethyl-2-thiouridine methyltransferase 2443784..2445790 Shigella flexneri 5 str. 8401 4206893 YP_689810.1 CDS SFV_2394 NC_008258.1 2445911 2446189 R hypothetical protein complement(2445911..2446189) Shigella flexneri 5 str. 8401 4206894 YP_689811.1 CDS SFV_2395 NC_008258.1 2446223 2446771 R Code: S; COG: COG3101; transporting ATPase complement(2446223..2446771) Shigella flexneri 5 str. 8401 4206895 YP_689812.1 CDS yfcA NC_008258.1 2446771 2447514 R Code: R; COG: COG0730; hypothetical protein complement(2446771..2447514) Shigella flexneri 5 str. 8401 4206896 YP_689813.1 CDS mepA NC_008258.1 2447580 2448404 R 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(2447580..2448404) Shigella flexneri 5 str. 8401 4206897 YP_689814.1 CDS aroC NC_008258.1 2448408 2449493 R catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis; chorismate synthase complement(2448408..2449493) Shigella flexneri 5 str. 8401 4206898 YP_689815.1 CDS yfcB NC_008258.1 2449528 2450793 R involved in methylation of ribosomal protein L3; N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase complement(2449528..2450793) Shigella flexneri 5 str. 8401 4207229 YP_689816.1 CDS SFV_2399 NC_008258.1 2450626 2451177 D Code: S; COG: COG2840; hypothetical protein 2450626..2451177 Shigella flexneri 5 str. 8401 4207228 YP_689817.1 CDS yfcO NC_008258.1 2451281 2452066 R hypothetical protein complement(2451281..2452066) Shigella flexneri 5 str. 8401 4207230 YP_689818.1 CDS SFV_2402 NC_008258.1 2452158 2452682 R Code: NU; COG: COG3539; minor fimbrial subunit complement(2452158..2452682) Shigella flexneri 5 str. 8401 4207231 YP_689819.1 CDS SFV_2403 NC_008258.1 2452679 2453149 R Code: NU; COG: COG3539; minor fimbrial subunit complement(2452679..2453149) Shigella flexneri 5 str. 8401 4207232 YP_689820.1 CDS SFV_2404 NC_008258.1 2453146 2453652 R Code: NU; COG: COG3539; fimbrial protein complement(2453146..2453652) Shigella flexneri 5 str. 8401 4207233 YP_689821.1 CDS yfcS NC_008258.1 2453699 2454421 R Code: NU; COG: COG3121; chaperone complement(2453699..2454421) Shigella flexneri 5 str. 8401 4207234 YP_689822.1 CDS SFV_2407 NC_008258.1 2457164 2457727 R Code: NU; COG: COG3539; fimbrial-like protein complement(2457164..2457727) Shigella flexneri 5 str. 8401 4207236 YP_689823.1 CDS SFV_2408 NC_008258.1 2458411 2458896 R Code: T; COG: COG2062; phosphohistidine phosphatase complement(2458411..2458896) Shigella flexneri 5 str. 8401 4207237 YP_689824.1 CDS fadJ NC_008258.1 2459099 2461243 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(2459099..2461243) Shigella flexneri 5 str. 8401 4207238 YP_689825.1 CDS fadI NC_008258.1 2461243 2462553 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(2461243..2462553) Shigella flexneri 5 str. 8401 4207239 YP_689826.1 CDS SFV_2411 NC_008258.1 2462733 2463017 R Code: S; COG: COG3691; hypothetical protein complement(2462733..2463017) Shigella flexneri 5 str. 8401 4207240 YP_689827.1 CDS fadL NC_008258.1 2463383 2464729 D Code: I; COG: COG2067; long-chain fatty acid outer membrane transporter 2463383..2464729 Shigella flexneri 5 str. 8401 4207241 YP_689828.1 CDS SFV_2413 NC_008258.1 2465095 2466153 D hypothetical protein 2465095..2466153 Shigella flexneri 5 str. 8401 4207242 YP_689829.1 CDS vacJ NC_008258.1 2466335 2467090 R Code: M; COG: COG2853; lipoprotein complement(2466335..2467090) Shigella flexneri 5 str. 8401 4207243 YP_689830.1 CDS yfdC NC_008258.1 2467384 2468316 D Code: P; COG: COG2116; transport protein 2467384..2468316 Shigella flexneri 5 str. 8401 4207244 YP_689831.1 CDS SFV_2417 NC_008258.1 2468626 2469120 D integrase 2468626..2469120 Shigella flexneri 5 str. 8401 4209541 YP_689832.1 CDS SFV_2418 NC_008258.1 2469095 2469661 R IS911 ORF2 complement(2469095..2469661) Shigella flexneri 5 str. 8401 4209542 YP_689833.1 CDS SFV_2419 NC_008258.1 2469962 2470264 R Code: L; COG: COG2963; IS911 ORF1 complement(2469962..2470264) Shigella flexneri 5 str. 8401 4209543 YP_689834.1 CDS SFV_2420 NC_008258.1 2470534 2471403 R phosphorylates aminoimidazole ribotide (AIR) which forms 4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate (HMP-P); synthesis of HMP-P from AIR is complex and requires the product of thiC gene at least; aminoimidazole riboside kinase complement(2470534..2471403) Shigella flexneri 5 str. 8401 4209544 YP_689835.1 CDS SFV_2421 NC_008258.1 2471454 2472803 R Code: L; COG: COG3385; IS4 orf complement(2471454..2472803) Shigella flexneri 5 str. 8401 4209545 YP_689836.1 CDS SFV_2422 NC_008258.1 2473101 2474534 D Code: G; COG: COG1621; hypothetical protein 2473101..2474534 Shigella flexneri 5 str. 8401 4209546 YP_689837.1 CDS SFV_2423 NC_008258.1 2474542 2475495 R Code: K; COG: COG1609; sucrose specific repressor complement(2474542..2475495) Shigella flexneri 5 str. 8401 4209547 YP_689838.1 CDS SFV_2424 NC_008258.1 2475768 2475986 D D-serine permease 2475768..2475986 Shigella flexneri 5 str. 8401 4209548 YP_689839.1 CDS dsdA NC_008258.1 2476004 2477332 D catalyzes the formation of pyruvate from serine; D-serine dehydratase 2476004..2477332 Shigella flexneri 5 str. 8401 4209549 YP_689840.1 CDS emrY NC_008258.1 2477440 2478978 R Code: GEPR; COG: COG0477; multidrug resistance protein Y complement(2477440..2478978) Shigella flexneri 5 str. 8401 4209550 YP_689841.1 CDS emrK NC_008258.1 2478978 2480141 R Code: V; COG: COG1566; multidrug resistance protein K complement(2478978..2480141) Shigella flexneri 5 str. 8401 4209551 YP_689842.1 CDS evgA NC_008258.1 2480558 2481172 D 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 2480558..2481172 Shigella flexneri 5 str. 8401 4209552 YP_689843.1 CDS evgS NC_008258.1 2481177 2484770 D hybrid sensory histidine kinase in two-component regulatory system with EvgA 2481177..2484770 Shigella flexneri 5 str. 8401 4209553 YP_689844.1 CDS yfdE NC_008258.1 2484826 2486010 R Code: C; COG: COG1804; hypothetical protein complement(2484826..2486010) Shigella flexneri 5 str. 8401 4209554 YP_689845.1 CDS SFV_2431 NC_008258.1 2486045 2486989 R member of the AEC family of auxin efflux transporters; unknown function; transporter YfdV complement(2486045..2486989) Shigella flexneri 5 str. 8401 4209555 YP_689846.1 CDS SFV_2432 NC_008258.1 2487059 2488753 R catalyzes the formation of formyl-CoA from oxalyl-CoA; oxalyl-CoA decarboxylase complement(2487059..2488753) Shigella flexneri 5 str. 8401 4209556 YP_689847.1 CDS SFV_2433 NC_008258.1 2488807 2490057 R catalyzes the formation of oxalyl-CoA from oxalate and Formyl-CoA; formyl-coenzyme A transferase complement(2488807..2490057) Shigella flexneri 5 str. 8401 4209557 YP_689848.1 CDS SFV_2434 NC_008258.1 2490570 2491193 R hypothetical protein complement(2490570..2491193) Shigella flexneri 5 str. 8401 4209558 YP_689849.1 CDS SFV_2435 NC_008258.1 2491842 2492084 R hypothetical protein complement(2491842..2492084) Shigella flexneri 5 str. 8401 4209559 YP_689850.1 CDS ddg NC_008258.1 2492437 2493357 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 2492437..2493357 Shigella flexneri 5 str. 8401 4209560 YP_689851.1 CDS SFV_2437 NC_008258.1 2493848 2495002 R Code: E; COG: COG0436; aminotransferase complement(2493848..2495002) Shigella flexneri 5 str. 8401 4208635 YP_689852.1 CDS SFV_2438 NC_008258.1 2495828 2496949 D Code: T; COG: COG3275; sensor protein 2495828..2496949 Shigella flexneri 5 str. 8401 4208636 YP_689853.1 CDS SFV_2439 NC_008258.1 2496964 2497698 D Code: KT; COG: COG3279; 2-component transcriptional regulator 2496964..2497698 Shigella flexneri 5 str. 8401 4208637 YP_689854.1 CDS SFV_2440 NC_008258.1 2497711 2498568 D Code: K; COG: COG2207; AraC family transcriptional regulator 2497711..2498568 Shigella flexneri 5 str. 8401 4208638 YP_689855.1 CDS SFV_2441 NC_008258.1 2498571 2501066 R Code: G; COG: COG1080; PTS system enzyme IIA component, enzyme I complement(2498571..2501066) Shigella flexneri 5 str. 8401 4208639 YP_689856.1 CDS SFV_2442 NC_008258.1 2501091 2502128 R metalloprotein; exoaminopeptidase complement(2501091..2502128) Shigella flexneri 5 str. 8401 4208640 YP_689857.1 CDS SFV_2444 NC_008258.1 2503226 2504473 R Code: G; COG: COG1299; transport protein complement(2503226..2504473) Shigella flexneri 5 str. 8401 4208642 YP_689858.1 CDS SFV_2445 NC_008258.1 2504495 2504821 R Code: G; COG: COG1445; PTS system enzyme IIB component complement(2504495..2504821) Shigella flexneri 5 str. 8401 4208643 YP_689859.1 CDS glk NC_008258.1 2505040 2506005 R catalyzes the conversion of ATP and D-glucose to ADP and D-glucose 6-phosphate; glucokinase complement(2505040..2506005) Shigella flexneri 5 str. 8401 4208644 YP_689860.1 CDS SFV_2447 NC_008258.1 2506209 2507465 D Code: P; COG: COG0038; hypothetical protein 2506209..2507465 Shigella flexneri 5 str. 8401 4208645 YP_689861.1 CDS SFV_2448 NC_008258.1 2507580 2507906 D hypothetical protein 2507580..2507906 Shigella flexneri 5 str. 8401 4208646 YP_689862.1 CDS SFV_2449 NC_008258.1 2508047 2509285 R Code: P; COG: COG1914; manganese transport protein MntH complement(2508047..2509285) Shigella flexneri 5 str. 8401 4208647 YP_689863.1 CDS nupC NC_008258.1 2509621 2510823 D Code: F; COG: COG1972; nucleoside transporter permease 2509621..2510823 Shigella flexneri 5 str. 8401 4208648 YP_689864.1 CDS yfeA NC_008258.1 2510873 2513062 R hypothetical protein complement(2510873..2513062) Shigella flexneri 5 str. 8401 4208649 YP_689865.1 CDS yfeC NC_008258.1 2513581 2513925 D hypothetical protein 2513581..2513925 Shigella flexneri 5 str. 8401 4208651 YP_689866.1 CDS yfeD NC_008258.1 2513927 2514325 D hypothetical protein 2513927..2514325 Shigella flexneri 5 str. 8401 4208652 YP_689867.1 CDS gltX NC_008258.1 2514377 2515792 R Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation; glutamyl-tRNA synthetase complement(2514377..2515792) Shigella flexneri 5 str. 8401 4208801 YP_689868.1 CDS flxA NC_008258.1 2516601 2516942 D hypothetical protein 2516601..2516942 Shigella flexneri 5 str. 8401 4208805 YP_689869.1 CDS yfeR NC_008258.1 2516933 2517859 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(2516933..2517859) Shigella flexneri 5 str. 8401 4208806 YP_689870.1 CDS yfeH NC_008258.1 2517949 2518947 D Code: R; COG: COG0385; cytochrome oxidase 2517949..2518947 Shigella flexneri 5 str. 8401 4208807 YP_689871.1 CDS ypeB NC_008258.1 2518944 2519162 R Code: S; COG: COG3530; cytoplasmic protein complement(2518944..2519162) Shigella flexneri 5 str. 8401 4208808 YP_689872.1 CDS ligA NC_008258.1 2519164 2521179 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(2519164..2521179) Shigella flexneri 5 str. 8401 4208809 YP_689873.1 CDS zipA NC_008258.1 2521250 2522275 R interacts with cell division protein FitsZ and may be required to anchor septal ring structure; cell division protein ZipA complement(2521250..2522275) Shigella flexneri 5 str. 8401 4208810 YP_689874.1 CDS cysZ NC_008258.1 2522466 2523227 D role in sulfur assimilation; sulfate transport protein CysZ 2522466..2523227 Shigella flexneri 5 str. 8401 4208811 YP_689875.1 CDS cysK NC_008258.1 2523412 2524383 D O-acetylserine sulfhydrolase A; CysK; forms a complex with serine acetyltransferase CysE; functions in cysteine biosynthesis; cysteine synthase A 2523412..2524383 Shigella flexneri 5 str. 8401 4208812 YP_689876.1 CDS ptsH NC_008258.1 2524767 2525024 D Code: G; COG: COG1925; PTS system phosphohistidinoprotein-hexose phosphotransferase subunit Hpr 2524767..2525024 Shigella flexneri 5 str. 8401 4208813 YP_689877.1 CDS ptsI NC_008258.1 2525069 2526796 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 2525069..2526796 Shigella flexneri 5 str. 8401 4208814 YP_689878.1 CDS crr NC_008258.1 2526837 2527346 D functions in phosphoenolpyruvate-(PEP)-dependent phosphotransferase (PTS) system; functions in the transport and phosphorylation of glucose; PTS system glucose-specific transporter subunit 2526837..2527346 Shigella flexneri 5 str. 8401 4208815 YP_689879.1 CDS pdxK NC_008258.1 2527388 2528239 R catalyzes the formation of pyridoxal 5'-phosphate from pyridoxal; pyridoxal kinase complement(2527388..2528239) Shigella flexneri 5 str. 8401 4208816 YP_689880.1 CDS yfeK NC_008258.1 2528344 2528718 D hypothetical protein 2528344..2528718 Shigella flexneri 5 str. 8401 4208672 YP_689881.1 CDS SFV_2472 NC_008258.1 2528751 2529158 D hypothetical protein 2528751..2529158 Shigella flexneri 5 str. 8401 4208673 YP_689882.1 CDS SFV_2473 NC_008258.1 2529127 2529474 D Code: S; COG: COG4884; hypothetical protein 2529127..2529474 Shigella flexneri 5 str. 8401 4208674 YP_689883.1 CDS cysM NC_008258.1 2529678 2530667 R catalyzes the formation of cysteine from 3-O-acetyl-L-serine and hydrogen sulfide; cysteine synthase B complement(2529678..2530667) Shigella flexneri 5 str. 8401 4208675 YP_689884.1 CDS cysA NC_008258.1 2530723 2531820 R Code: P; COG: COG1118; sulfate/thiosulfate transporter subunit complement(2530723..2531820) Shigella flexneri 5 str. 8401 4208676 YP_689885.1 CDS cysW NC_008258.1 2531810 2532685 R Part of the ABC transporter complex cysAWTP involved in sulfate/thiosulfate import; sulfate/thiosulfate transporter permease subunit complement(2531810..2532685) Shigella flexneri 5 str. 8401 4208677 YP_689886.1 CDS cysU NC_008258.1 2532685 2533518 R Code: O; COG: COG0555; sulfate/thiosulfate transporter subunit complement(2532685..2533518) Shigella flexneri 5 str. 8401 4208678 YP_689887.1 CDS cysP NC_008258.1 2533518 2534534 R Code: P; COG: COG4150; thiosulfate transporter subunit complement(2533518..2534534) Shigella flexneri 5 str. 8401 4208679 YP_689888.1 CDS ucpA NC_008258.1 2534838 2535629 R Code: IQR; COG: COG1028; short chain dehydrogenase complement(2534838..2535629) Shigella flexneri 5 str. 8401 4208680 YP_689889.1 CDS yfeT NC_008258.1 2535816 2536616 R Code: K; COG: COG1737; hypothetical protein complement(2535816..2536616) Shigella flexneri 5 str. 8401 4208681 YP_689890.1 CDS murQ NC_008258.1 2536780 2537676 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 2536780..2537676 Shigella flexneri 5 str. 8401 4208682 YP_689891.1 CDS murP NC_008258.1 2537680 2539104 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 subunits EIIBC 2537680..2539104 Shigella flexneri 5 str. 8401 4208683 YP_689892.1 CDS SFV_2483 NC_008258.1 2539284 2540183 R Code: P; COG: COG2837; hypothetical protein complement(2539284..2540183) Shigella flexneri 5 str. 8401 4208684 YP_689893.1 CDS SFV_2484 NC_008258.1 2540279 2540854 R hypothetical protein complement(2540279..2540854) Shigella flexneri 5 str. 8401 4208685 YP_689894.1 CDS SFV_2485 NC_008258.1 2540915 2541370 R hypothetical protein complement(2540915..2541370) Shigella flexneri 5 str. 8401 4208686 YP_689895.1 CDS SFV_2486 NC_008258.1 2541351 2541887 R Code: R; COG: COG0456; acetyltransferase complement(2541351..2541887) Shigella flexneri 5 str. 8401 4208687 YP_689896.1 CDS amiA NC_008258.1 2541990 2542859 D Code: M; COG: COG0860; N-acetylmuramoyl-L-alanine amidase 2541990..2542859 Shigella flexneri 5 str. 8401 4208688 YP_689897.1 CDS hemF NC_008258.1 2542863 2543762 D catalyzes the conversion of the propionic acid groups of rings I and III to vinyl groups during heme synthesis; coproporphyrinogen III oxidase 2542863..2543762 Shigella flexneri 5 str. 8401 4208689 YP_689898.1 CDS yfeG NC_008258.1 2543768 2544820 R activates the transcription of the ethanolamine utilization operon; transcriptional regulator EutR complement(2543768..2544820) Shigella flexneri 5 str. 8401 4208690 YP_689899.1 CDS SFV_2490 NC_008258.1 2544866 2545366 R Code: QC; COG: COG4577; hypothetical protein complement(2544866..2545366) Shigella flexneri 5 str. 8401 4208691 YP_689900.1 CDS SFV_2491 NC_008258.1 2545379 2546038 R Code: E; COG: COG4816; hypothetical protein complement(2545379..2546038) Shigella flexneri 5 str. 8401 4209616 YP_689901.1 CDS SFV_2492 NC_008258.1 2547220 2547963 D hypothetical protein 2547220..2547963 Shigella flexneri 5 str. 8401 4209617 YP_689902.1 CDS insB NC_008258.1 2548191 2548673 D Code: L; COG: COG1662; IS1 ORF2 2548191..2548673 Shigella flexneri 5 str. 8401 4209618 YP_689903.1 CDS SFV_2494 NC_008258.1 2549507 2549761 D hypothetical protein 2549507..2549761 Shigella flexneri 5 str. 8401 4209619 YP_689904.1 CDS SFV_2495 NC_008258.1 2549919 2550182 D hypothetical protein 2549919..2550182 Shigella flexneri 5 str. 8401 4209620 YP_689905.1 CDS SFV_2496 NC_008258.1 2550205 2550747 D hypothetical protein 2550205..2550747 Shigella flexneri 5 str. 8401 4209621 YP_689906.1 CDS SFV_2497 NC_008258.1 2551212 2551418 D hypothetical protein 2551212..2551418 Shigella flexneri 5 str. 8401 4209622 YP_689907.1 CDS SFV_2498 NC_008258.1 2551730 2552215 D hypothetical protein 2551730..2552215 Shigella flexneri 5 str. 8401 4209623 YP_689908.1 CDS SFV_2499 NC_008258.1 2552467 2553927 D Code: E; COG: COG0531; amino acid antiporter 2552467..2553927 Shigella flexneri 5 str. 8401 4209624 YP_689909.1 CDS SFV_2500 NC_008258.1 2554078 2554770 D Code: M; COG: COG0796; hypothetical protein 2554078..2554770 Shigella flexneri 5 str. 8401 4209625 YP_689910.1 CDS SFV_2501 NC_008258.1 2554889 2555284 R Code: L; COG: COG1662; iso-IS1 ORF2 complement(2554889..2555284) Shigella flexneri 5 str. 8401 4209626 YP_689911.2 CDS SFV_2502 NC_008258.1 2555618 2556523 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(2555618..2556523) Shigella flexneri 5 str. 8401 4209627 YP_689912.1 CDS SFV_2503 NC_008258.1 2556481 2556846 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(2556481..2556846) Shigella flexneri 5 str. 8401 4209628 YP_689913.1 CDS eutA NC_008258.1 2557439 2558812 R ethanolamine utilization protein EutA; reactivating factor for ethanolamine ammonia lyase complement(2557439..2558812) Shigella flexneri 5 str. 8401 4209629 YP_689914.1 CDS SFV_2505 NC_008258.1 2558787 2559266 R Code: E; COG: COG4917; hypothetical protein complement(2558787..2559266) Shigella flexneri 5 str. 8401 4209630 YP_689915.1 CDS SFV_2506 NC_008258.1 2559279 2559686 R Code: E; COG: COG4810; hypothetical protein complement(2559279..2559686) Shigella flexneri 5 str. 8401 4209631 YP_689916.1 CDS SFV_2507 NC_008258.1 2559907 2562186 R NADP-dependent; catalyzes the oxidative decarboxylation of malate to form pyruvate; decarboxylates oxaloacetate; malic enzyme complement(2559907..2562186) Shigella flexneri 5 str. 8401 4209632 YP_689917.1 CDS talA NC_008258.1 2562475 2563425 D Code: G; COG: COG0176; transaldolase A 2562475..2563425 Shigella flexneri 5 str. 8401 4209633 YP_689918.1 CDS tktB NC_008258.1 2563445 2565448 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 2563445..2565448 Shigella flexneri 5 str. 8401 4209634 YP_689919.1 CDS SFV_2510 NC_008258.1 2565551 2566594 R hypothetical protein complement(2565551..2566594) Shigella flexneri 5 str. 8401 4208536 YP_689920.1 CDS yffH NC_008258.1 2566720 2567295 R Code: LR; COG: COG0494; hypothetical protein complement(2566720..2567295) Shigella flexneri 5 str. 8401 4208537 YP_689921.1 CDS yffG NC_008258.1 2567363 2569342 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(2567363..2569342) Shigella flexneri 5 str. 8401 4208538 YP_689922.1 CDS acrD NC_008258.1 2571467 2574580 D Code: V; COG: COG0841; aminoglycoside/multidrug efflux system 2571467..2574580 Shigella flexneri 5 str. 8401 4208540 YP_689923.1 CDS yffB NC_008258.1 2575119 2575475 D Code: P; COG: COG1393; hypothetical protein 2575119..2575475 Shigella flexneri 5 str. 8401 4208541 YP_689924.1 CDS dapE NC_008258.1 2575479 2576606 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 2575479..2576606 Shigella flexneri 5 str. 8401 4208542 YP_689925.2 CDS SFV_2517 NC_008258.1 2576634 2576834 D hypothetical protein 2576634..2576834 Shigella flexneri 5 str. 8401 4208543 YP_689926.1 CDS ypfH NC_008258.1 2576944 2577642 R Displays esterase activity toward palmitoyl-CoA and pNP-butyrate; esterase complement(2576944..2577642) Shigella flexneri 5 str. 8401 4208544 YP_689927.1 CDS ypfI NC_008258.1 2577716 2579731 R Code: R; COG: COG1444; hypothetical protein complement(2577716..2579731) Shigella flexneri 5 str. 8401 4208545 YP_689928.1 CDS SFV_2520 NC_008258.1 2579746 2580609 R Code: R; COG: COG2321; hypothetical protein complement(2579746..2580609) Shigella flexneri 5 str. 8401 4208546 YP_689929.1 CDS purC NC_008258.1 2580777 2581490 R 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; phosphoribosylaminoimidazole-succinocarboxamide synthase complement(2580777..2581490) Shigella flexneri 5 str. 8401 4208547 YP_689930.1 CDS nlpB NC_008258.1 2581703 2582737 R Code: M; COG: COG3317; lipoprotein complement(2581703..2582737) Shigella flexneri 5 str. 8401 4208548 YP_689931.1 CDS dapA NC_008258.1 2582754 2583632 R catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis; dihydrodipicolinate synthase complement(2582754..2583632) Shigella flexneri 5 str. 8401 4208549 YP_689932.1 CDS gcvR NC_008258.1 2583778 2584350 D negative transcriptional regulator of the gcvTHP operon; glycine cleavage system transcriptional repressor 2583778..2584350 Shigella flexneri 5 str. 8401 4208550 YP_689933.1 CDS bcp NC_008258.1 2584350 2584820 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 2584350..2584820 Shigella flexneri 5 str. 8401 4208551 YP_689934.1 CDS hyfA NC_008258.1 2585073 2585690 D Code: C; COG: COG1142; hydrogenase 4 Fe-S subunit 2585073..2585690 Shigella flexneri 5 str. 8401 4208552 YP_689935.1 CDS hyfC NC_008258.1 2587718 2588665 D Code: C; COG: COG0650; hydrogenase 4 membrane subunit 2587718..2588665 Shigella flexneri 5 str. 8401 4208554 YP_689936.1 CDS hyfD NC_008258.1 2588709 2590121 D Code: CP; COG: COG1009; hydrogenase 4 subunit D 2588709..2590121 Shigella flexneri 5 str. 8401 4208555 YP_689937.1 CDS hyfE NC_008258.1 2590133 2590783 D interacts with formate dehydrogenase to produce an active formate hydrogenlyase complex which cleaves formate to dihydrogen and carbon dioxide; hydrogenase 4 membrane subunit 2590133..2590783 Shigella flexneri 5 str. 8401 4208459 YP_689938.1 CDS hyfF NC_008258.1 2590788 2592380 D Code: CP; COG: COG0651; hydrogenase 4 subunit F 2590788..2592380 Shigella flexneri 5 str. 8401 4208460 YP_689939.1 CDS hyfH NC_008258.1 2594094 2594639 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 2594094..2594639 Shigella flexneri 5 str. 8401 4208462 YP_689940.1 CDS hyfI NC_008258.1 2594636 2595394 D Code: C; COG: COG3260; hydrogenase 4 Fe-S subunit 2594636..2595394 Shigella flexneri 5 str. 8401 4208463 YP_689941.1 CDS SFV_2535 NC_008258.1 2595324 2595800 D protein processing element 2595324..2595800 Shigella flexneri 5 str. 8401 4208464 YP_689942.1 CDS hyfR NC_008258.1 2595896 2597842 D Code: KT; COG: COG3604; 2-component regulator, interaction with sigma 54 2595896..2597842 Shigella flexneri 5 str. 8401 4208465 YP_689943.1 CDS perM NC_008258.1 2598750 2599811 R Code: R; COG: COG0628; permease complement(2598750..2599811) Shigella flexneri 5 str. 8401 4208467 YP_689944.1 CDS SFV_2539 NC_008258.1 2600024 2601487 D Code: R; COG: COG4783; hypothetical protein 2600024..2601487 Shigella flexneri 5 str. 8401 4208468 YP_689945.1 CDS SFV_2540 NC_008258.1 2601508 2601867 D Code: P; COG: COG1393; oxidoreductase 2601508..2601867 Shigella flexneri 5 str. 8401 4208469 YP_689946.1 CDS SFV_2541 NC_008258.1 2602000 2602746 R controls initiation of DNA replication by inhibiting re-initiation of replication, promotes hydrolysis of DnaA-bound ATP; DNA replication initiation factor complement(2602000..2602746) Shigella flexneri 5 str. 8401 4208470 YP_689947.1 CDS uraA NC_008258.1 2602796 2604022 R Code: F; COG: COG2233; uracil transporter complement(2602796..2604022) Shigella flexneri 5 str. 8401 4208471 YP_689948.1 CDS upp NC_008258.1 2604171 2604797 R Catalyzes the formation of uracil and 5-phospho-alpha-D-ribosy 1-diphosphate from UMP and diphosphate; uracil phosphoribosyltransferase complement(2604171..2604797) Shigella flexneri 5 str. 8401 4208472 YP_689949.1 CDS purM NC_008258.1 2605121 2606158 D catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis; phosphoribosylaminoimidazole synthetase 2605121..2606158 Shigella flexneri 5 str. 8401 4208473 YP_689950.1 CDS purN NC_008258.1 2606158 2606796 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 2606158..2606796 Shigella flexneri 5 str. 8401 4208474 YP_689951.1 CDS ppk NC_008258.1 2606968 2609034 D catalyzes the reversible transfer of the terminal phosphate of ATP to form a long chain polyphosphate; polyphosphate kinase 2606968..2609034 Shigella flexneri 5 str. 8401 4208475 YP_689952.1 CDS ppx NC_008258.1 2609111 2610580 D Code: FP; COG: COG0248; exopolyphosphatase 2609111..2610580 Shigella flexneri 5 str. 8401 4208476 YP_689953.1 CDS SFV_2548 NC_008258.1 2611794 2612096 D Code: L; COG: COG2963; IS600 ORF1 2611794..2612096 Shigella flexneri 5 str. 8401 4208477 YP_689954.1 CDS SFV_2549 NC_008258.1 2612237 2612950 D Code: L; COG: COG2801; IS600 ORF2 2612237..2612950 Shigella flexneri 5 str. 8401 4207508 YP_689955.1 CDS SFV_2551 NC_008258.1 2614480 2614671 D hypothetical protein 2614480..2614671 Shigella flexneri 5 str. 8401 4207510 YP_689956.1 CDS SFV_2552 NC_008258.1 2614988 2615503 D outer membrane lipoprotein 2614988..2615503 Shigella flexneri 5 str. 8401 4207511 YP_689957.1 CDS SFV_2553 NC_008258.1 2615519 2616058 D hypothetical protein 2615519..2616058 Shigella flexneri 5 str. 8401 4207512 YP_689958.1 CDS guaA NC_008258.1 2616153 2617730 R contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway; GMP synthase complement(2616153..2617730) Shigella flexneri 5 str. 8401 4207513 YP_689959.1 CDS guaB NC_008258.1 2617799 2619271 R catalyzes the synthesis of xanthosine monophosphate by the NAD+ dependent oxidation of inosine monophosphate; inosine 5'-monophosphate dehydrogenase complement(2617799..2619271) Shigella flexneri 5 str. 8401 4207514 YP_689960.1 CDS xseA NC_008258.1 2619427 2620797 D bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides; exodeoxyribonuclease VII large subunit 2619427..2620797 Shigella flexneri 5 str. 8401 4207515 YP_689961.1 CDS SFV_2557 NC_008258.1 2620794 2621045 R hypothetical protein complement(2620794..2621045) Shigella flexneri 5 str. 8401 4207516 YP_689962.1 CDS engA NC_008258.1 2621079 2622551 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(2621079..2622551) Shigella flexneri 5 str. 8401 4207517 YP_689963.1 CDS SFV_2559 NC_008258.1 2622669 2623847 R with YaeT, YfiO, and NlpB forms a complex involved in outer membrane protein biogenesis; outer membrane protein assembly complex subunit YfgL complement(2622669..2623847) Shigella flexneri 5 str. 8401 4207518 YP_689964.1 CDS SFV_2560 NC_008258.1 2623858 2624478 R Code: S; COG: COG2976; hypothetical protein complement(2623858..2624478) Shigella flexneri 5 str. 8401 4207519 YP_689965.1 CDS hisS NC_008258.1 2624496 2625740 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(2624496..2625740) Shigella flexneri 5 str. 8401 4207520 YP_689966.1 CDS ispG NC_008258.1 2625873 2627000 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(2625873..2627000) Shigella flexneri 5 str. 8401 4207521 YP_689967.1 CDS yfgA NC_008258.1 2627027 2628040 R Code: S; COG: COG1426; cytoskeletal protein RodZ complement(2627027..2628040) Shigella flexneri 5 str. 8401 4207522 YP_689968.1 CDS yfgB NC_008258.1 2628325 2629479 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(2628325..2629479) Shigella flexneri 5 str. 8401 4207523 YP_689969.1 CDS ndk NC_008258.1 2629629 2630060 R catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate; nucleoside diphosphate kinase complement(2629629..2630060) Shigella flexneri 5 str. 8401 4207524 YP_689970.1 CDS pbpC NC_008258.1 2630210 2632258 R Code: M; COG: COG4953; peptidoglycan protein complement(2630210..2632258) Shigella flexneri 5 str. 8401 4207525 YP_689971.1 CDS SFV_2567 NC_008258.1 2632260 2632676 R ISSfl2 ORF complement(2632260..2632676) Shigella flexneri 5 str. 8401 4207526 YP_689972.1 CDS SFV_2568 NC_008258.1 2632855 2633457 R ISSfl2 ORF complement(2632855..2633457) Shigella flexneri 5 str. 8401 4207527 YP_689973.1 CDS sseB NC_008258.1 2634988 2635773 R enhances serine sensitivity caused by inhibition of homoserine dehydrogenase I; enhanced serine sensitivity protein SseB complement(2634988..2635773) Shigella flexneri 5 str. 8401 4207305 YP_689974.1 CDS pepB NC_008258.1 2635906 2637189 R catalyzes the removal of an N-terminal amino acid from a peptide or arylamide; aminopeptidase complement(2635906..2637189) Shigella flexneri 5 str. 8401 4207306 YP_689975.1 CDS yfhJ NC_008258.1 2637248 2637448 R Code: S; COG: COG2975; hypothetical protein complement(2637248..2637448) Shigella flexneri 5 str. 8401 4207307 YP_689976.1 CDS fdx NC_008258.1 2637460 2637795 R Code: C; COG: COG0633; [2FE-2S] ferredoxin, electron carrer protein complement(2637460..2637795) Shigella flexneri 5 str. 8401 4207308 YP_689977.1 CDS hscA NC_008258.1 2637797 2639647 R involved in the maturation of iron-sulfur cluster-containing proteins; chaperone protein HscA complement(2637797..2639647) Shigella flexneri 5 str. 8401 4207309 YP_689978.1 CDS hscB NC_008258.1 2639664 2640179 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(2639664..2640179) Shigella flexneri 5 str. 8401 4207310 YP_689979.1 CDS iscA NC_008258.1 2640275 2640604 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(2640275..2640604) Shigella flexneri 5 str. 8401 4207311 YP_689980.1 CDS SFV_2577 NC_008258.1 2640615 2641001 R Code: C; COG: COG0822; scaffold protein complement(2640615..2641001) Shigella flexneri 5 str. 8401 4207312 YP_689981.1 CDS yfhO NC_008258.1 2641029 2642243 R catalyzes the removal of elemental sulfur from cysteine to produce alanine; involved in NAD biosynthesis; cysteine desulfurase complement(2641029..2642243) Shigella flexneri 5 str. 8401 4207313 YP_689982.1 CDS SFV_2579 NC_008258.1 2642355 2642843 R regulates the expression of the iscRSUA operon; DNA-binding transcriptional regulator IscR complement(2642355..2642843) Shigella flexneri 5 str. 8401 4207314 YP_689983.1 CDS SFV_2580 NC_008258.1 2643113 2643853 R Code: J; COG: COG0565; ATP synthase subunit beta complement(2643113..2643853) Shigella flexneri 5 str. 8401 4207315 YP_689984.1 CDS suhB NC_008258.1 2643972 2644775 D Code: G; COG: COG0483; inositol monophosphatase 2643972..2644775 Shigella flexneri 5 str. 8401 4207316 YP_689985.1 CDS SFV_2582 NC_008258.1 2644920 2645774 D Code: R; COG: COG1073; hypothetical protein 2644920..2645774 Shigella flexneri 5 str. 8401 4207317 YP_689986.1 CDS csiE NC_008258.1 2645965 2647245 D Code: K; COG: COG3711; stationary phase inducible protein CsiE 2645965..2647245 Shigella flexneri 5 str. 8401 4207318 YP_689987.1 CDS hcaT NC_008258.1 2647237 2648376 R transporter of 3-phenylpropionate across the inner membrane; member of the major facilitator superfamily of transporters; 3-phenylpropionic acid transporter complement(2647237..2648376) Shigella flexneri 5 str. 8401 4207319 YP_689988.1 CDS hcaR NC_008258.1 2648536 2649426 R activator of 3-phenylpropionic acid catabolism; DNA-binding transcriptional regulator HcaR complement(2648536..2649426) Shigella flexneri 5 str. 8401 4207320 YP_689989.1 CDS hcaA1 NC_008258.1 2649562 2650923 D Code: PR; COG: COG4638; large terminal subunit of phenylpropionate dioxygenase 2649562..2650923 Shigella flexneri 5 str. 8401 4207321 YP_689990.1 CDS hcaA2 NC_008258.1 2650920 2651438 D Code: Q; COG: COG5517; 3-phenylpropionate dioxygenase subunit beta 2650920..2651438 Shigella flexneri 5 str. 8401 4207322 YP_689991.1 CDS hcaC NC_008258.1 2651438 2651758 D Code: PR; COG: COG2146; 3-phenylpropionate dioxygenase ferredoxin subunit 2651438..2651758 Shigella flexneri 5 str. 8401 4210036 YP_689992.1 CDS hcaB NC_008258.1 2651755 2652567 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 2651755..2652567 Shigella flexneri 5 str. 8401 4210037 YP_689993.1 CDS hcaD NC_008258.1 2652577 2653809 D Code: R; COG: COG0446; phenylpropionate dioxygenase ferredoxin reductase subunit 2652577..2653809 Shigella flexneri 5 str. 8401 4210038 YP_689994.1 CDS yphA NC_008258.1 2653834 2654238 D Code: S; COG: COG2259; hypothetical protein 2653834..2654238 Shigella flexneri 5 str. 8401 4210039 YP_689995.1 CDS yphB NC_008258.1 2654375 2655247 R Code: G; COG: COG2017; hypothetical protein complement(2654375..2655247) Shigella flexneri 5 str. 8401 4210040 YP_689996.1 CDS yphC NC_008258.1 2655259 2656320 R Code: ER; COG: COG1063; oxidoreductase complement(2655259..2656320) Shigella flexneri 5 str. 8401 4210041 YP_689997.1 CDS yphD NC_008258.1 2656386 2657384 R Code: G; COG: COG1172; transport system permease complement(2656386..2657384) Shigella flexneri 5 str. 8401 4210042 YP_689998.1 CDS yphE NC_008258.1 2657409 2658920 R Code: G; COG: COG1129; ABC transporter ATP-binding protein complement(2657409..2658920) Shigella flexneri 5 str. 8401 4210043 YP_689999.1 CDS yphF NC_008258.1 2658943 2659926 R Code: G; COG: COG1879; LACI-type transcriptional regulator complement(2658943..2659926) Shigella flexneri 5 str. 8401 4210044 YP_690000.1 CDS yphH NC_008258.1 2663416 2664615 D Code: KG; COG: COG1940; NAGC-like transcriptional regulator 2663416..2664615 Shigella flexneri 5 str. 8401 4210046 YP_690001.1 CDS glyA NC_008258.1 2664813 2666066 R catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate; serine hydroxymethyltransferase complement(2664813..2666066) Shigella flexneri 5 str. 8401 4210047 YP_690002.1 CDS hmpA NC_008258.1 2666393 2667583 D flavohemoprotein; catalyzes the formation of nitrate from nitric oxide; can also catalyze the reduction of dihydropteridine; nitric oxide dioxygenase 2666393..2667583 Shigella flexneri 5 str. 8401 4210048 YP_690003.1 CDS glnB NC_008258.1 2667628 2667966 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(2667628..2667966) Shigella flexneri 5 str. 8401 4210049 YP_690004.1 CDS yfhA NC_008258.1 2668027 2669361 R Code: T; COG: COG2204; 2-component transcriptional regulator complement(2668027..2669361) Shigella flexneri 5 str. 8401 4210050 YP_690005.1 CDS yfhG NC_008258.1 2669351 2670070 R hypothetical protein complement(2669351..2670070) Shigella flexneri 5 str. 8401 4210051 YP_690006.1 CDS yfhK NC_008258.1 2670229 2671656 R Code: T; COG: COG0642; 2-component sensor protein complement(2670229..2671656) Shigella flexneri 5 str. 8401 4210052 YP_690007.1 CDS purL NC_008258.1 2672232 2676275 R 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(2672232..2676275) Shigella flexneri 5 str. 8401 4210053 YP_690008.1 CDS yfhD NC_008258.1 2676516 2677934 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 2676516..2677934 Shigella flexneri 5 str. 8401 4210054 YP_690009.1 CDS yfhC NC_008258.1 2677931 2678434 R Code: FJ; COG: COG0590; tRNA-specific adenosine deaminase complement(2677931..2678434) Shigella flexneri 5 str. 8401 4210055 YP_690010.1 CDS yfhB NC_008258.1 2678492 2679103 R Code: E; COG: COG0560; hypothetical protein complement(2678492..2679103) Shigella flexneri 5 str. 8401 4207701 YP_690011.1 CDS yfhH NC_008258.1 2679264 2680184 D Code: K; COG: COG1737; DNA-binding transcriptional regulator 2679264..2680184 Shigella flexneri 5 str. 8401 4207702 YP_690012.1 CDS pin NC_008258.1 2680637 2681077 R Code: L; COG: COG1961; DNA-invertase complement(2680637..2681077) Shigella flexneri 5 str. 8401 4207703 YP_690013.1 CDS ipaH_6 NC_008258.1 2681569 2683395 D Code: S; COG: COG4886; invasion plasmid antigen 2681569..2683395 Shigella flexneri 5 str. 8401 4207704 YP_690014.1 CDS SFV_2612 NC_008258.1 2683575 2684198 R hypothetical protein complement(2683575..2684198) Shigella flexneri 5 str. 8401 4207705 YP_690015.1 CDS SFV_2613 NC_008258.1 2684149 2685417 R tail fiber protein complement(2684149..2685417) Shigella flexneri 5 str. 8401 4207706 YP_690016.1 CDS SFV_2614 NC_008258.1 2685441 2685986 R tail fiber assembly protein complement(2685441..2685986) Shigella flexneri 5 str. 8401 4207707 YP_690017.1 CDS SFV_2615 NC_008258.1 2686010 2686462 R IS1 encoded protein complement(2686010..2686462) Shigella flexneri 5 str. 8401 4207708 YP_690018.1 CDS SFV_2616 NC_008258.1 2686571 2686936 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 2686571..2686936 Shigella flexneri 5 str. 8401 4207709 YP_690019.1 CDS SFV_2617 NC_008258.1 2686960 2687799 D Code: L; COG: COG2801; IS2 ORF2 2686960..2687799 Shigella flexneri 5 str. 8401 4207710 YP_690020.1 CDS SFV_2618 NC_008258.1 2687724 2688710 R tail fiber protein complement(2687724..2688710) Shigella flexneri 5 str. 8401 4207711 YP_690021.1 CDS SFV_2619 NC_008258.1 2688697 2689302 R hypothetical protein complement(2688697..2689302) Shigella flexneri 5 str. 8401 4207712 YP_690022.1 CDS SFV_2620 NC_008258.1 2689313 2689990 R bacteriophage protein complement(2689313..2689990) Shigella flexneri 5 str. 8401 4207713 YP_690023.1 CDS SFV_2621 NC_008258.1 2690070 2690372 D Code: L; COG: COG2963; IS600 ORF1 2690070..2690372 Shigella flexneri 5 str. 8401 4207714 YP_690024.1 CDS SFV_2622 NC_008258.1 2690513 2691226 D Code: L; COG: COG2801; IS600 ORF2 2690513..2691226 Shigella flexneri 5 str. 8401 4207715 YP_690025.1 CDS SFV_2623 NC_008258.1 2691267 2692367 R hypothetical protein complement(2691267..2692367) Shigella flexneri 5 str. 8401 4207716 YP_690026.1 CDS insB NC_008258.1 2692905 2693408 R Code: L; COG: COG1662; IS1 ORF2 complement(2692905..2693408) Shigella flexneri 5 str. 8401 4207717 YP_690027.1 CDS SFV_2625 NC_008258.1 2693483 2693668 D IS1 encoded protein 2693483..2693668 Shigella flexneri 5 str. 8401 4207718 YP_690028.1 CDS acpS NC_008258.1 2694313 2694693 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(2694313..2694693) Shigella flexneri 5 str. 8401 4207719 YP_690029.1 CDS pdxJ NC_008258.1 2694693 2695424 R involved in the de novo synthesis of pyridoxine (Vitamin B6); pyridoxine 5'-phosphate synthase complement(2694693..2695424) Shigella flexneri 5 str. 8401 4207284 YP_690030.1 CDS recO NC_008258.1 2695436 2696164 R 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(2695436..2696164) Shigella flexneri 5 str. 8401 4207285 YP_690031.1 CDS era NC_008258.1 2696176 2697081 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(2696176..2697081) Shigella flexneri 5 str. 8401 4207286 YP_690032.1 CDS rnc NC_008258.1 2697078 2697758 R 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(2697078..2697758) Shigella flexneri 5 str. 8401 4207287 YP_690033.1 CDS lepB NC_008258.1 2698030 2699004 R catalyzes the cleavage of the amino-terminal leader peptide from secretory proteins; signal peptidase I complement(2698030..2699004) Shigella flexneri 5 str. 8401 4207288 YP_690034.1 CDS lepA NC_008258.1 2699020 2700819 R may be inner membrane protein; binds to the ribosome on the universally-conserved alpha-sarcin loop; GTP-binding protein LepA complement(2699020..2700819) Shigella flexneri 5 str. 8401 4207289 YP_690035.1 CDS rseC NC_008258.1 2701017 2701496 R involved in the reduction of the SoxR iron-sulfur cluster; SoxR reducing system protein RseC complement(2701017..2701496) Shigella flexneri 5 str. 8401 4207290 YP_690036.1 CDS rseB NC_008258.1 2701493 2702449 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(2701493..2702449) Shigella flexneri 5 str. 8401 4207291 YP_690037.1 CDS rseA NC_008258.1 2702449 2703099 R Code: T; COG: COG3073; anti-RNA polymerase sigma factor SigE complement(2702449..2703099) Shigella flexneri 5 str. 8401 4207292 YP_690038.1 CDS rpoE NC_008258.1 2703132 2703707 R 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(2703132..2703707) Shigella flexneri 5 str. 8401 4207293 YP_690039.1 CDS yfiC NC_008258.1 2705722 2706579 R Code: R; COG: COG4123; hypothetical protein complement(2705722..2706579) Shigella flexneri 5 str. 8401 4207295 YP_690040.1 CDS srmB NC_008258.1 2706591 2707925 D facilitates an early step in the assembly of the 50S subunit of the ribosome; ATP-dependent RNA helicase SrmB 2706591..2707925 Shigella flexneri 5 str. 8401 4207296 YP_690041.1 CDS yfiE NC_008258.1 2707960 2708886 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(2707960..2708886) Shigella flexneri 5 str. 8401 4207297 YP_690042.1 CDS yfiK NC_008258.1 2708944 2709531 D Code: E; COG: COG1280; neutral amino-acid efflux protein 2708944..2709531 Shigella flexneri 5 str. 8401 4207298 YP_690043.1 CDS yfiD NC_008258.1 2709587 2709970 R stress-induced glycyl radical protein that can replace an oxidatively damaged pyruvate formate-lyase subunit; autonomous glycyl radical cofactor GrcA complement(2709587..2709970) Shigella flexneri 5 str. 8401 4207299 YP_690044.1 CDS ung NC_008258.1 2710275 2710964 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 2710275..2710964 Shigella flexneri 5 str. 8401 4207300 YP_690045.1 CDS yfiF NC_008258.1 2711012 2712049 R Code: J; COG: COG0566; methyltransferase complement(2711012..2712049) Shigella flexneri 5 str. 8401 4207301 YP_690046.1 CDS trxC NC_008258.1 2712256 2712675 D Code: OC; COG: COG0526; thioredoxin 2712256..2712675 Shigella flexneri 5 str. 8401 4207302 YP_690047.1 CDS yfiP NC_008258.1 2712693 2713442 D Code: S; COG: COG3148; hypothetical protein 2712693..2713442 Shigella flexneri 5 str. 8401 4207303 YP_690048.1 CDS yfiQ NC_008258.1 2713474 2716134 D Code: C; COG: COG1042; hypothetical protein 2713474..2716134 Shigella flexneri 5 str. 8401 4208692 YP_690049.1 CDS pssA NC_008258.1 2716248 2717603 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 2716248..2717603 Shigella flexneri 5 str. 8401 4208693 YP_690050.1 CDS yfiM NC_008258.1 2717649 2717972 D Code: R; COG: COG5544; hypothetical protein 2717649..2717972 Shigella flexneri 5 str. 8401 4208694 YP_690051.1 CDS kgtP NC_008258.1 2717969 2719267 R Code: GEPR; COG: COG0477; alpha-ketoglutarate transporter complement(2717969..2719267) Shigella flexneri 5 str. 8401 4208695 YP_690052.1 CDS SFV_2655 NC_008258.1 2725101 2725841 D IS4 orf 2725101..2725841 Shigella flexneri 5 str. 8401 4208700 YP_690053.1 CDS SFV_2656 NC_008258.1 2725810 2726448 D IS4 orf 2725810..2726448 Shigella flexneri 5 str. 8401 4208701 YP_690054.1 CDS SFV_2657 NC_008258.1 2726499 2727236 R 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 complement(2726499..2727236) Shigella flexneri 5 str. 8401 4208702 YP_690055.1 CDS rluD NC_008258.1 2727371 2728351 D responsible for synthesis of pseudouridine from uracil at positions 1911, 1915 and 1917 in 23S ribosomal RNA; 23S rRNA pseudouridine synthase D 2727371..2728351 Shigella flexneri 5 str. 8401 4208703 YP_690056.1 CDS yfiH NC_008258.1 2728348 2729079 D Code: S; COG: COG1496; hypothetical protein 2728348..2729079 Shigella flexneri 5 str. 8401 4208704 YP_690057.1 CDS clpB NC_008258.1 2729209 2731782 D Code: O; COG: COG0542; protein disaggregation chaperone 2729209..2731782 Shigella flexneri 5 str. 8401 4208705 YP_690058.1 CDS SFV_2661 NC_008258.1 2731819 2733165 R Code: L; COG: COG3385; IS4 orf complement(2731819..2733165) Shigella flexneri 5 str. 8401 4208706 YP_690059.1 CDS ygdH NC_008258.1 2733249 2734577 R Code: R; COG: COG1611; hypothetical protein complement(2733249..2734577) Shigella flexneri 5 str. 8401 4209213 YP_690060.1 CDS queF NC_008258.1 2734725 2735573 R 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 complement(2734725..2735573) Shigella flexneri 5 str. 8401 4209214 YP_690061.1 CDS syd NC_008258.1 2735641 2736186 D SecY regulator that either chelates excess SecY or negatively regulates the SecYE translocase function; SecY interacting protein Syd 2735641..2736186 Shigella flexneri 5 str. 8401 4209215 YP_690062.1 CDS SFV_2665 NC_008258.1 2736808 2737137 D Code: S; COG: COG3098; hypothetical protein 2736808..2737137 Shigella flexneri 5 str. 8401 4209216 YP_690063.1 CDS yqcB NC_008258.1 2737137 2737919 D catalyzes formation of pseudouridine at position 65 in tRNA-Ile1 and tRNA-Asp; tRNA pseudouridine synthase C 2737137..2737919 Shigella flexneri 5 str. 8401 4209217 YP_690064.1 CDS SFV_2667 NC_008258.1 2737937 2738386 D An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic group; flavodoxin 2737937..2738386 Shigella flexneri 5 str. 8401 4209218 YP_690065.1 CDS SFV_2668 NC_008258.1 2738820 2740172 D Code: GEPR; COG: COG0477; transport protein 2738820..2740172 Shigella flexneri 5 str. 8401 4209219 YP_690066.1 CDS ygcY NC_008258.1 2740174 2741514 D Code: MR; COG: COG4948; glucarate dehydratase 2740174..2741514 Shigella flexneri 5 str. 8401 4209220 YP_690067.1 CDS ygcX NC_008258.1 2741535 2742875 D Code: MR; COG: COG4948; glucarate dehydratase 2741535..2742875 Shigella flexneri 5 str. 8401 4209221 YP_690068.1 CDS barA NC_008258.1 2743107 2745863 R 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 complement(2743107..2745863) Shigella flexneri 5 str. 8401 4209222 YP_690069.1 CDS rumA NC_008258.1 2745920 2747221 D 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 2745920..2747221 Shigella flexneri 5 str. 8401 4209223 YP_690070.1 CDS relA NC_008258.1 2747269 2749503 D (p)ppGpp synthetase; catalyzes the formation of pppGpp and ppGpp from ATP and GTP or GDP; GDP/GTP pyrophosphokinase 2747269..2749503 Shigella flexneri 5 str. 8401 4209224 YP_690071.1 CDS mazG NC_008258.1 2749599 2750390 D 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 Era; nucleoside triphosphate pyrophosphohydrolase 2749599..2750390 Shigella flexneri 5 str. 8401 4209225 YP_690072.1 CDS pyrG NC_008258.1 2750618 2752255 D 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 2750618..2752255 Shigella flexneri 5 str. 8401 4209226 YP_690073.1 CDS eno NC_008258.1 2752343 2753638 D enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis; phosphopyruvate hydratase 2752343..2753638 Shigella flexneri 5 str. 8401 4209227 YP_690074.1 CDS ygcG NC_008258.1 2753698 2754570 R Code: R; COG: COG1512; hypothetical protein complement(2753698..2754570) Shigella flexneri 5 str. 8401 4209228 YP_690075.1 CDS ygcF NC_008258.1 2754863 2755534 D Code: O; COG: COG0602; hypothetical protein 2754863..2755534 Shigella flexneri 5 str. 8401 4209229 YP_690076.1 CDS insB NC_008258.1 2755573 2755866 R IS1 ORF2 complement(2755573..2755866) Shigella flexneri 5 str. 8401 4209230 YP_690077.1 CDS insB NC_008258.1 2755903 2756076 R IS1 ORF2 complement(2755903..2756076) Shigella flexneri 5 str. 8401 4209231 YP_690078.1 CDS SFV_2681 NC_008258.1 2756190 2757179 D hypothetical protein 2756190..2757179 Shigella flexneri 5 str. 8401 4209232 YP_690079.1 CDS ygcS NC_008258.1 2757273 2758610 D Code: GEPR; COG: COG0477; transport protein 2757273..2758610 Shigella flexneri 5 str. 8401 4208971 YP_690080.1 CDS ygcR NC_008258.1 2758588 2759367 D Code: C; COG: COG2086; transport protein 2758588..2759367 Shigella flexneri 5 str. 8401 4208972 YP_690081.1 CDS ygcQ NC_008258.1 2759364 2760224 D Code: C; COG: COG2025; flavoprotein 2759364..2760224 Shigella flexneri 5 str. 8401 4208973 YP_690082.1 CDS SFV_2686 NC_008258.1 2761161 2762120 R Code: L; COG: COG0582; integrase complement(2761161..2762120) Shigella flexneri 5 str. 8401 4208975 YP_690083.1 CDS SFV_2687 NC_008258.1 2762026 2762739 R Code: L; COG: COG2801; IS600 ORF2 complement(2762026..2762739) Shigella flexneri 5 str. 8401 4208976 YP_690084.1 CDS SFV_2688 NC_008258.1 2762880 2763182 R Code: L; COG: COG2963; IS600 ORF1 complement(2762880..2763182) Shigella flexneri 5 str. 8401 4208977 YP_690085.1 CDS SFV_2689 NC_008258.1 2763458 2766364 D bacteriophage protein 2763458..2766364 Shigella flexneri 5 str. 8401 4208978 YP_690086.1 CDS SFV_2690 NC_008258.1 2766527 2766715 D bacteriophage protein 2766527..2766715 Shigella flexneri 5 str. 8401 4208979 YP_690087.1 CDS ninB NC_008258.1 2766712 2767122 D recombination protein 2766712..2767122 Shigella flexneri 5 str. 8401 4208980 YP_690088.1 CDS SFV_2693 NC_008258.1 2767337 2767645 R hypothetical protein complement(2767337..2767645) Shigella flexneri 5 str. 8401 4208982 YP_690089.1 CDS SFV_2692 NC_008258.1 2767506 2768336 D bacteriophage protein 2767506..2768336 Shigella flexneri 5 str. 8401 4208981 YP_690090.1 CDS SFV_2694 NC_008258.1 2768463 2768846 D hypothetical protein 2768463..2768846 Shigella flexneri 5 str. 8401 4208983 YP_690091.1 CDS SFV_2695 NC_008258.1 2769063 2769971 D hypothetical protein 2769063..2769971 Shigella flexneri 5 str. 8401 4208984 YP_690092.1 CDS SFV_2696 NC_008258.1 2769982 2770860 D Code: L; COG: COG1484; replication protein DnaC 2769982..2770860 Shigella flexneri 5 str. 8401 4208985 YP_690093.1 CDS SFV_2697 NC_008258.1 2770857 2772248 D Code: L; COG: COG0305; helicase 2770857..2772248 Shigella flexneri 5 str. 8401 4208986 YP_690094.1 CDS SFV_2698 NC_008258.1 2772245 2772502 D bacteriophage protein 2772245..2772502 Shigella flexneri 5 str. 8401 4208987 YP_690095.1 CDS SFV_2699 NC_008258.1 2772595 2772795 D bacteriophage protein 2772595..2772795 Shigella flexneri 5 str. 8401 4208988 YP_690096.1 CDS SFV_2704 NC_008258.1 2773971 2774186 D hypothetical protein 2773971..2774186 Shigella flexneri 5 str. 8401 4207947 YP_690097.1 CDS SFV_2705 NC_008258.1 2774260 2774820 D hypothetical protein 2774260..2774820 Shigella flexneri 5 str. 8401 4207948 YP_690098.1 CDS SFV_2706 NC_008258.1 2774886 2775419 D Code: R; COG: COG3772; lysozyme 2774886..2775419 Shigella flexneri 5 str. 8401 4207949 YP_690099.1 CDS SFV_2707 NC_008258.1 2775416 2775883 D endopeptidase 2775416..2775883 Shigella flexneri 5 str. 8401 4207950 YP_690100.1 CDS SFV_2708 NC_008258.1 2776309 2777022 R Code: L; COG: COG2801; IS600 ORF2 complement(2776309..2777022) Shigella flexneri 5 str. 8401 4207951 YP_690101.1 CDS SFV_2709 NC_008258.1 2777163 2777465 R Code: L; COG: COG2963; IS600 ORF1 complement(2777163..2777465) Shigella flexneri 5 str. 8401 4207952 YP_690102.1 CDS SFV_2710 NC_008258.1 2779099 2779257 D IS600 ORF1 2779099..2779257 Shigella flexneri 5 str. 8401 4207953 YP_690103.1 CDS SFV_2711 NC_008258.1 2779260 2780147 R Code: L; COG: COG2801; IS629 ORF2 complement(2779260..2780147) Shigella flexneri 5 str. 8401 4207954 YP_690104.1 CDS SFV_2712 NC_008258.1 2780147 2780473 R Code: L; COG: COG2963; IS629 ORF1 complement(2780147..2780473) Shigella flexneri 5 str. 8401 4207955 YP_690105.1 CDS SFV_2713 NC_008258.1 2780589 2780714 D IS600 ORF1 2780589..2780714 Shigella flexneri 5 str. 8401 4207956 YP_690106.1 CDS SFV_2714 NC_008258.1 2780855 2781568 D Code: L; COG: COG2801; IS600 ORF2 2780855..2781568 Shigella flexneri 5 str. 8401 4207957 YP_690107.1 CDS SFV_2715 NC_008258.1 2781596 2781919 D Code: L; COG: COG4220; terminase small subunit 2781596..2781919 Shigella flexneri 5 str. 8401 4207958 YP_690108.1 CDS SFV_2716 NC_008258.1 2781891 2783819 D terminase large subunit; Code: R; COG: COG5525; DNA packaging protein of prophage 2781891..2783819 Shigella flexneri 5 str. 8401 4209766 YP_690109.1 CDS SFV_2717 NC_008258.1 2784003 2785058 D Code: R; COG: COG5511; head-tail preconnector gp5 2784003..2785058 Shigella flexneri 5 str. 8401 4209767 YP_690110.1 CDS SFV_2718 NC_008258.1 2785111 2785596 D head-tail preconnector gp5 2785111..2785596 Shigella flexneri 5 str. 8401 4209768 YP_690111.1 CDS SFV_2719 NC_008258.1 2785586 2787091 D Code: OU; COG: COG0616; head-tail preconnector gp5 2785586..2787091 Shigella flexneri 5 str. 8401 4209769 YP_690112.1 CDS SFV_2720 NC_008258.1 2787128 2787475 D capsid protein small subunit 2787128..2787475 Shigella flexneri 5 str. 8401 4209770 YP_690113.1 CDS SFV_2721 NC_008258.1 2787533 2788561 D major capsid protein 2787533..2788561 Shigella flexneri 5 str. 8401 4209771 YP_690114.1 CDS SFV_2722 NC_008258.1 2788613 2788999 D DNA-packaging protein 2788613..2788999 Shigella flexneri 5 str. 8401 4209772 YP_690115.1 CDS SFV_2723 NC_008258.1 2789011 2789364 D tail attachment protein 2789011..2789364 Shigella flexneri 5 str. 8401 4209773 YP_690116.1 CDS SFV_2724 NC_008258.1 2789374 2789955 D tail component of prophage 2789374..2789955 Shigella flexneri 5 str. 8401 4209774 YP_690117.1 CDS SFV_2725 NC_008258.1 2789952 2790353 D tail component of prophage 2789952..2790353 Shigella flexneri 5 str. 8401 4209775 YP_690118.1 CDS SFV_2726 NC_008258.1 2790364 2791104 D Code: N; COG: COG5492; tail component of prophage 2790364..2791104 Shigella flexneri 5 str. 8401 4209776 YP_690119.1 CDS SFV_2727 NC_008258.1 2791163 2791549 D tail component of prophage 2791163..2791549 Shigella flexneri 5 str. 8401 4209777 YP_690120.1 CDS SFV_2728 NC_008258.1 2791558 2791887 D tail component of prophage 2791558..2791887 Shigella flexneri 5 str. 8401 4209778 YP_690121.1 CDS SFV_2730 NC_008258.1 2794901 2795842 D Code: S; COG: COG4672; minor tail protein 2794901..2795842 Shigella flexneri 5 str. 8401 4209780 YP_690122.1 CDS SFV_2731 NC_008258.1 2795778 2796590 D tail assembly protein 2795778..2796590 Shigella flexneri 5 str. 8401 4209781 YP_690123.1 CDS SFV_2732 NC_008258.1 2796554 2797129 D Code: S; COG: COG4723; tail component of prophage 2796554..2797129 Shigella flexneri 5 str. 8401 4209782 YP_690124.1 CDS SFV_2733 NC_008258.1 2797190 2800669 D Code: S; COG: COG4733; host specificity protein 2797190..2800669 Shigella flexneri 5 str. 8401 4209783 YP_690125.1 CDS SFV_2734 NC_008258.1 2800737 2801336 D Code: M; COG: COG3637; hypothetical protein 2800737..2801336 Shigella flexneri 5 str. 8401 4209784 YP_690126.1 CDS SFV_2735 NC_008258.1 2801400 2802815 D phage tail fiber protein 2801400..2802815 Shigella flexneri 5 str. 8401 4209785 YP_690127.1 CDS SFV_2736 NC_008258.1 2802766 2803389 D hypothetical protein 2802766..2803389 Shigella flexneri 5 str. 8401 4210386 YP_690128.1 CDS ipaH_7 NC_008258.1 2803569 2805332 R Code: S; COG: COG4886; invasion plasmid antigen complement(2803569..2805332) Shigella flexneri 5 str. 8401 4210387 YP_690129.1 CDS ygcO NC_008258.1 2805816 2806112 R Code: C; COG: COG2440; hypothetical protein complement(2805816..2806112) Shigella flexneri 5 str. 8401 4210388 YP_690130.1 CDS ygcN NC_008258.1 2806067 2807338 R Code: C; COG: COG0644; hypothetical protein complement(2806067..2807338) Shigella flexneri 5 str. 8401 4210389 YP_690131.1 CDS ygcM NC_008258.1 2807416 2807865 R Code: H; COG: COG0720; 6-pyruvoyl tetrahydrobiopterin synthase complement(2807416..2807865) Shigella flexneri 5 str. 8401 4210390 YP_690132.1 CDS cysJ NC_008258.1 2808097 2809896 D 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 2808097..2809896 Shigella flexneri 5 str. 8401 4210391 YP_690133.1 CDS cysI NC_008258.1 2809896 2811608 D hemoprotein; NADPH dependent; with the alpha subunit (a flavoprotein) catalyzes the reduction of sulfite to sulfide; sulfite reductase subunit beta 2809896..2811608 Shigella flexneri 5 str. 8401 4210392 YP_690134.1 CDS cysH NC_008258.1 2811682 2812416 D catalyzes the reduction of 3'-phosphoadenylyl sulfate into sulfite; phosphoadenosine phosphosulfate reductase 2811682..2812416 Shigella flexneri 5 str. 8401 4210393 YP_690135.1 CDS SFV_2744 NC_008258.1 2813068 2814177 D hypothetical protein 2813068..2814177 Shigella flexneri 5 str. 8401 4210394 YP_690136.1 CDS iap NC_008258.1 2814263 2815300 R catalyzes the sequential removal of 2 amino-terminal arginines from alkaline phosphatase isozyme 1 to form isozymes 2 and 3; alkaline phosphatase complement(2814263..2815300) Shigella flexneri 5 str. 8401 4210395 YP_690137.1 CDS cysD NC_008258.1 2815552 2816460 D with CysN catalyzes the formation of adenylylsulfate from sulfate and ATP; sulfate adenylyltransferase subunit 2 2815552..2816460 Shigella flexneri 5 str. 8401 4210396 YP_690138.1 CDS cysN NC_008258.1 2816462 2817889 D 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 2816462..2817889 Shigella flexneri 5 str. 8401 4210397 YP_690139.1 CDS cysC NC_008258.1 2817889 2818494 D converts ATP and adenylyl sulfate to ADP and 3'-phosphoadenylyl sulfate; in Escherichia coli this enzyme functions in cysteine biosynthesis; adenylylsulfate kinase 2817889..2818494 Shigella flexneri 5 str. 8401 4210398 YP_690140.1 CDS ygbE NC_008258.1 2818544 2818867 D hypothetical protein 2818544..2818867 Shigella flexneri 5 str. 8401 4210399 YP_690141.1 CDS ftsB NC_008258.1 2819061 2819372 D forms a complex with FtsL and FtsQ; colocalizes to the septal region of the dividing cell; membrane protein; cell division protein FtsB 2819061..2819372 Shigella flexneri 5 str. 8401 4210400 YP_690142.1 CDS ispD NC_008258.1 2819391 2820101 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 2819391..2820101 Shigella flexneri 5 str. 8401 4210401 YP_690143.1 CDS ispF NC_008258.1 2820101 2820580 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-cyclodiphosphate synthase 2820101..2820580 Shigella flexneri 5 str. 8401 4210402 YP_690144.1 CDS truD NC_008258.1 2820577 2821626 D catalyzes the modification of U13 in tRNA(Glu); tRNA pseudouridine synthase D 2820577..2821626 Shigella flexneri 5 str. 8401 4210403 YP_690145.1 CDS surE NC_008258.1 2821562 2822368 D catalyzes the conversion of a phosphate monoester to an alcohol and a phosphate; stationary phase survival protein SurE 2821562..2822368 Shigella flexneri 5 str. 8401 4210404 YP_690146.1 CDS pcm NC_008258.1 2822362 2822988 D catalyzes the methyl esterification of L-isoaspartyl residues that are formed in damaged proteins; protein-L-isoaspartate O-methyltransferase 2822362..2822988 Shigella flexneri 5 str. 8401 4210346 YP_690147.1 CDS nlpD NC_008258.1 2823128 2824267 D outer membrane lipoprotein involved in stationary-phase cell survival; similar to LppB virulence determinant from Haemophilus somnus; lipoprotein NlpD 2823128..2824267 Shigella flexneri 5 str. 8401 4210347 YP_690148.1 CDS rpoS NC_008258.1 2824330 2825322 D 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 2824330..2825322 Shigella flexneri 5 str. 8401 4210348 YP_690149.1 CDS SFV_2758 NC_008258.1 2825442 2825849 R Code: K; COG: COG1846; transcriptional regulator complement(2825442..2825849) Shigella flexneri 5 str. 8401 4210349 YP_690150.1 CDS SFV_2759 NC_008258.1 2825996 2826589 D Code: H; COG: COG0163; phenylacrylic acid decarboxylase-like protein 2825996..2826589 Shigella flexneri 5 str. 8401 4210350 YP_690151.1 CDS yclC NC_008258.1 2826589 2827539 D Code: H; COG: COG0043; 4-hydroxybenzoate decarboxylase 2826589..2827539 Shigella flexneri 5 str. 8401 4210351 YP_690152.1 CDS SFV_2761 NC_008258.1 2827809 2828372 R regulatory protein complement(2827809..2828372) Shigella flexneri 5 str. 8401 4210352 YP_690153.1 CDS SFV_2762 NC_008258.1 2828790 2830811 D Code: L; COG: COG2801; phage transposase 2828790..2830811 Shigella flexneri 5 str. 8401 4210353 YP_690154.1 CDS SFV_2763 NC_008258.1 2830951 2831664 R Code: L; COG: COG2801; IS600 ORF2 complement(2830951..2831664) Shigella flexneri 5 str. 8401 4210354 YP_690155.1 CDS SFV_2764 NC_008258.1 2831819 2832031 R IS1 encoded protein complement(2831819..2832031) Shigella flexneri 5 str. 8401 4210355 YP_690156.1 CDS insB NC_008258.1 2832106 2832609 D Code: L; COG: COG1662; IS1 ORF2 2832106..2832609 Shigella flexneri 5 str. 8401 4210356 YP_690157.1 CDS SFV_2766 NC_008258.1 2832603 2832884 R Code: L; COG: COG2963; IS600 ORF1 complement(2832603..2832884) Shigella flexneri 5 str. 8401 4210357 YP_690158.1 CDS SFV_2767 NC_008258.1 2833166 2834074 R Code: I; COG: COG2084; dehydrogenase complement(2833166..2834074) Shigella flexneri 5 str. 8401 4210358 YP_690159.1 CDS ygbI NC_008258.1 2834306 2835037 D Code: KG; COG: COG1349; DeoR-type transcriptional regulator 2834306..2835037 Shigella flexneri 5 str. 8401 4210359 YP_690160.1 CDS mutS NC_008258.1 2835846 2838407 R This protein performs the mismatch recognition step during the DNA repair process; DNA mismatch repair protein MutS complement(2835846..2838407) Shigella flexneri 5 str. 8401 4210361 YP_690161.1 CDS ygbA NC_008258.1 2838694 2839047 D hypothetical protein 2838694..2839047 Shigella flexneri 5 str. 8401 4210362 YP_690162.1 CDS fhlA NC_008258.1 2839084 2841162 R Code: KT; COG: COG3604; formate hydrogen-lyase transcriptional activator complement(2839084..2841162) Shigella flexneri 5 str. 8401 4210363 YP_690163.1 CDS hypE NC_008258.1 2841236 2842204 R plays structural role in maturation of all 3 hydrogenases; Code: O; COG: COG0309; hypothetical protein complement(2841236..2842204) Shigella flexneri 5 str. 8401 4210364 YP_690164.1 CDS hypD NC_008258.1 2842243 2843364 R pleiotrophic effects on 3 hydrogenase isozymes; Code: O; COG: COG0409; hydrogenase isoenzyme HypD complement(2842243..2843364) Shigella flexneri 5 str. 8401 4210365 YP_690165.1 CDS hypC NC_008258.1 2843364 2843636 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(2843364..2843636) Shigella flexneri 5 str. 8401 4209080 YP_690166.1 CDS hypB NC_008258.1 2843627 2844499 R GTP hydrolase involved in nickel liganding into hydrogenases; hydrogenase nickel incorporation protein HypB complement(2843627..2844499) Shigella flexneri 5 str. 8401 4209081 YP_690167.1 CDS hypA NC_008258.1 2844503 2844853 R pleiotrophic effects on 3 hydrogenase isozymes; plays a role in hydrogenase nickel cofactor insertion; hydrogenase nickel incorporation protein complement(2844503..2844853) Shigella flexneri 5 str. 8401 4209082 YP_690168.1 CDS hycA NC_008258.1 2845065 2845526 D regulates several genes involved in the formate hydrogenlyase system; seems to prevent binding of FhlA transcriptional activator to the activator sequence of hyc operon; formate hydrogenlyase regulatory protein HycA 2845065..2845526 Shigella flexneri 5 str. 8401 4209083 YP_690169.1 CDS hycB NC_008258.1 2845651 2846262 D Code: C; COG: COG1142; small subunit of hydrogenase-3, iron-sulfur protein 2845651..2846262 Shigella flexneri 5 str. 8401 4209084 YP_690170.1 CDS hycC NC_008258.1 2846431 2847969 D Code: CP; COG: COG0651; formate hydrogenlyase subunit 3 2846431..2847969 Shigella flexneri 5 str. 8401 4209085 YP_690171.1 CDS hycD NC_008258.1 2847972 2848895 D Code: C; COG: COG0650; hydrogenase 3 membrane-spanning protein 2847972..2848895 Shigella flexneri 5 str. 8401 4209086 YP_690172.1 CDS hycE NC_008258.1 2848913 2850622 D Code: C; COG: COG3261; large subunit of hydrogenase 3 (part of FHL complex) 2848913..2850622 Shigella flexneri 5 str. 8401 4209087 YP_690173.1 CDS hycF NC_008258.1 2850632 2851174 D 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 2850632..2851174 Shigella flexneri 5 str. 8401 4209088 YP_690174.1 CDS hycG NC_008258.1 2851174 2851941 D Code: C; COG: COG3260; hydrogenase activity 2851174..2851941 Shigella flexneri 5 str. 8401 4209089 YP_690175.1 CDS hycH NC_008258.1 2851938 2852348 D hydrogenase 3 large subunit processing protein 2851938..2852348 Shigella flexneri 5 str. 8401 4209090 YP_690176.1 CDS hycI NC_008258.1 2852374 2852811 D involved in the C-terminal processing of the large subunit of hydrogenase 3 HycE; hydrogenase 3 maturation protease 2852374..2852811 Shigella flexneri 5 str. 8401 4209091 YP_690177.1 CDS SFV_2787 NC_008258.1 2852836 2853597 D periplasmic or exported protein 2852836..2853597 Shigella flexneri 5 str. 8401 4209092 YP_690178.1 CDS SFV_2788 NC_008258.1 2854077 2854496 D Code: K; COG: COG5499; hypothetical protein 2854077..2854496 Shigella flexneri 5 str. 8401 4209093 YP_690179.1 CDS ascB NC_008258.1 2854611 2856035 R Code: G; COG: COG2723; cryptic 6-phospho-beta-glucosidase complement(2854611..2856035) Shigella flexneri 5 str. 8401 4209094 YP_690180.1 CDS ascF NC_008258.1 2856044 2857501 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 cellobiose/arbutin/salicin-specific transporter subunits IIBC complement(2856044..2857501) Shigella flexneri 5 str. 8401 4209095 YP_690181.1 CDS ascG NC_008258.1 2857758 2858771 D Code: K; COG: COG1609; ascBF operon repressor 2857758..2858771 Shigella flexneri 5 str. 8401 4209096 YP_690182.1 CDS hydN NC_008258.1 2858920 2859447 D involved in electron transport from formate to hydrogen; electron transport protein HydN 2858920..2859447 Shigella flexneri 5 str. 8401 4209097 YP_690183.1 CDS hypF NC_008258.1 2859600 2861852 D Code: O; COG: COG0068; transcriptional regulatory protein 2859600..2861852 Shigella flexneri 5 str. 8401 4209098 YP_690184.1 CDS ygbD NC_008258.1 2861980 2863113 R catalyzes the reduction of the rubredoxin moiety of nitric oxide reductase; nitric oxide reductase complement(2861980..2863113) Shigella flexneri 5 str. 8401 4207926 YP_690185.1 CDS SFV_2795 NC_008258.1 2863110 2864549 R detoxifies nitric oxide using NADH; anaerobic nitric oxide reductase flavorubredoxin complement(2863110..2864549) Shigella flexneri 5 str. 8401 4207927 YP_690186.1 CDS ygaA NC_008258.1 2864736 2866250 D Required for the expression of anaerobic nitric oxide (NO) reductase; acts as a transcriptional activator for the norVW operon; anaerobic nitric oxide reductase transcription regulator 2864736..2866250 Shigella flexneri 5 str. 8401 4207928 YP_690187.1 CDS gutQ NC_008258.1 2866247 2867212 R catalyzes the conversion of D-arabinose 5-phosphate to D-ribulose-5-phosphate; D-arabinose 5-phosphate isomerase complement(2866247..2867212) Shigella flexneri 5 str. 8401 4207929 YP_690188.1 CDS srlR NC_008258.1 2867205 2867978 R regulates genes involved in glucitol utilization; DNA-binding transcriptional repressor SrlR complement(2867205..2867978) Shigella flexneri 5 str. 8401 4207930 YP_690189.1 CDS gutM NC_008258.1 2868045 2868404 R regulator for glucitol utilization; DNA-binding transcriptional activator GutM complement(2868045..2868404) Shigella flexneri 5 str. 8401 4207931 YP_690190.1 CDS srlD NC_008258.1 2868509 2869288 R catalyzes the conversion of sorbitol 6-phosphate into fructose 6-phosphate; sorbitol-6-phosphate dehydrogenase complement(2868509..2869288) Shigella flexneri 5 str. 8401 4207932 YP_690191.1 CDS srlB NC_008258.1 2869292 2869663 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(2869292..2869663) Shigella flexneri 5 str. 8401 4207933 YP_690192.1 CDS srlA NC_008258.1 2870629 2871192 R Code: G; COG: COG3730; PTS system glucitol/sorbitol-specific transporter subunit IIC complement(2870629..2871192) Shigella flexneri 5 str. 8401 4207935 YP_690193.1 CDS mltB NC_008258.1 2871388 2872533 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 2871388..2872533 Shigella flexneri 5 str. 8401 4207936 YP_690194.1 CDS ygaD NC_008258.1 2872678 2873175 D Code: R; COG: COG1546; competence damage-inducible protein A 2872678..2873175 Shigella flexneri 5 str. 8401 4207937 YP_690195.1 CDS recA NC_008258.1 2873255 2874316 D 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 2873255..2874316 Shigella flexneri 5 str. 8401 4207938 YP_690196.1 CDS recX NC_008258.1 2874559 2875059 D binds RecA and inhibits RecA-mediated DNA strand exchange and ATP hydrolysis and coprotease activities; recombination regulator RecX 2874559..2875059 Shigella flexneri 5 str. 8401 4207939 YP_690197.1 CDS alaS NC_008258.1 2875187 2877817 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 2875187..2877817 Shigella flexneri 5 str. 8401 4207940 YP_690198.1 CDS csrA NC_008258.1 2878052 2878237 D controls glycogen synthesis, gluconeogenesis, cell size and surface properties; affects carbohydrate metabolism; has regulatory role in many processes; carbon storage regulator 2878052..2878237 Shigella flexneri 5 str. 8401 4207941 YP_690199.1 CDS yqaB NC_008258.1 2879155 2879721 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 2879155..2879721 Shigella flexneri 5 str. 8401 4207065 YP_690200.1 CDS SFV_2815 NC_008258.1 2879718 2880146 D Code: S; COG: COG1238; hypothetical protein 2879718..2880146 Shigella flexneri 5 str. 8401 4207066 YP_690201.1 CDS gshA NC_008258.1 2880219 2881775 D involved in the first step of glutathione biosynthesis; glutamate--cysteine ligase 2880219..2881775 Shigella flexneri 5 str. 8401 4207067 YP_690202.1 CDS ygaG NC_008258.1 2881925 2882440 D catalyzes the hydrolysis of S-ribosylhomocysteine to homocysteine and autoinducer-2; S-ribosylhomocysteinase 2881925..2882440 Shigella flexneri 5 str. 8401 4207068 YP_690203.1 CDS emrB NC_008258.1 2882504 2884042 R Code: GEPR; COG: COG0477; multidrug resistant protein emrB complement(2882504..2884042) Shigella flexneri 5 str. 8401 4207069 YP_690204.1 CDS emrR NC_008258.1 2885358 2885888 R DNA-binding transcriptional repressor of microcin B17 synthesis and multidrug efflux; negative regulator of the multidrug operon emrAB; transcriptional repressor MprA complement(2885358..2885888) Shigella flexneri 5 str. 8401 4207071 YP_690205.1 CDS ygaH NC_008258.1 2885979 2886314 R hypothetical protein complement(2885979..2886314) Shigella flexneri 5 str. 8401 4207072 YP_690206.1 CDS SFV_2822 NC_008258.1 2886304 2887041 R Code: E; COG: COG1296; hypothetical protein complement(2886304..2887041) Shigella flexneri 5 str. 8401 4207073 YP_690207.1 CDS SFV_2823 NC_008258.1 2887385 2888305 R Code: GEPR; COG: COG0477; major facilitator superfamily permease complement(2887385..2888305) Shigella flexneri 5 str. 8401 4207074 YP_690208.1 CDS proX NC_008258.1 2888536 2889528 R with ProVW, part of the high-affinity transport system for the osmoprotectant glycine betaine; glycine betaine transporter periplasmic subunit complement(2888536..2889528) Shigella flexneri 5 str. 8401 4207075 YP_690209.1 CDS proW NC_008258.1 2889586 2890650 R with ProVX is involved in the high-affinity uptake of glycine betaine; glycine betaine transporter membrane protein complement(2889586..2890650) Shigella flexneri 5 str. 8401 4207076 YP_690210.1 CDS proV NC_008258.1 2890643 2892046 R for glycine, betaine and proline; with ProWX is involved in the high-affinity uptake of glycine betaine; glycine betaine transporter ATP-binding subunit complement(2890643..2892046) Shigella flexneri 5 str. 8401 4207077 YP_690211.1 CDS nrdF NC_008258.1 2892200 2893159 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(2892200..2893159) Shigella flexneri 5 str. 8401 4207078 YP_690212.1 CDS nrdE NC_008258.1 2893169 2895313 R Catalyzes the rate-limiting step in dNTP synthesis; ribonucleotide-diphosphate reductase subunit alpha complement(2893169..2895313) Shigella flexneri 5 str. 8401 4207079 YP_690213.1 CDS nrdI NC_008258.1 2895286 2895696 R in Salmonella NrdI has a stimulatory effect on the ribonucleotide reductase activity of NrdH with NrdEF; ribonucleotide reductase stimulatory protein complement(2895286..2895696) Shigella flexneri 5 str. 8401 4208421 YP_690214.1 CDS nrdH NC_008258.1 2895693 2895947 R Code: O; COG: COG0695; glutaredoxin-like protein complement(2895693..2895947) Shigella flexneri 5 str. 8401 4208422 YP_690215.1 CDS ygaM NC_008258.1 2896187 2896516 R Code: S; COG: COG4575; hypothetical protein complement(2896187..2896516) Shigella flexneri 5 str. 8401 4208423 YP_690216.1 CDS ygaC NC_008258.1 2896668 2897012 D hypothetical protein 2896668..2897012 Shigella flexneri 5 str. 8401 4208424 YP_690217.1 CDS SFV_2833 NC_008258.1 2897049 2897498 R hypothetical protein complement(2897049..2897498) Shigella flexneri 5 str. 8401 4208425 YP_690218.1 CDS stpA NC_008258.1 2898168 2898572 D Code: R; COG: COG2916; DNA binding protein, nucleoid-associated 2898168..2898572 Shigella flexneri 5 str. 8401 4208426 YP_690219.1 CDS ygaP NC_008258.1 2898619 2899143 R Code: P; COG: COG0607; hypothetical protein complement(2898619..2899143) Shigella flexneri 5 str. 8401 4208427 YP_690220.1 CDS SFV_2836 NC_008258.1 2899153 2899452 R Code: K; COG: COG0640; hypothetical protein complement(2899153..2899452) Shigella flexneri 5 str. 8401 4208428 YP_690221.1 CDS SFV_2837 NC_008258.1 2899635 2899793 D Code: S; COG: COG0401; hypothetical protein 2899635..2899793 Shigella flexneri 5 str. 8401 4208429 YP_690222.1 CDS ygaU NC_008258.1 2899877 2900326 D Code: S; COG: COG1652; LysM domain/BON superfamily protein 2899877..2900326 Shigella flexneri 5 str. 8401 4208430 YP_690223.1 CDS ygaE NC_008258.1 2900327 2900989 R regulator of gab gene expression; DNA-binding transcriptional regulator CsiR complement(2900327..2900989) Shigella flexneri 5 str. 8401 4208431 YP_690224.1 CDS gabP NC_008258.1 2901010 2902410 R Code: E; COG: COG1113; gamma-aminobutyrate transporter complement(2901010..2902410) Shigella flexneri 5 str. 8401 4208432 YP_690225.1 CDS gabT NC_008258.1 2902648 2903907 R catalyzes the formation of succinate semialdehyde and glutamate from 4-aminobutanoate and 2-oxoglutarate; 4-aminobutyrate aminotransferase complement(2902648..2903907) Shigella flexneri 5 str. 8401 4208433 YP_690226.1 CDS ygaF NC_008258.1 2905413 2906681 R catalyzed the formation of 2-ketoglutarate from 2-hydroxyglutarate; hydroxyglutarate oxidase complement(2905413..2906681) Shigella flexneri 5 str. 8401 4208435 YP_690227.1 CDS SFV_2844 NC_008258.1 2906701 2907783 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(2906701..2907783) Shigella flexneri 5 str. 8401 4208436 YP_690228.1 CDS SFV_2845 NC_008258.1 2908014 2910266 R hypothetical protein complement(2908014..2910266) Shigella flexneri 5 str. 8401 4208437 YP_690229.1 CDS SFV_2847 NC_008258.1 2911148 2912014 R Code: L; COG: COG2801; IS3 ORF2 complement(2911148..2912014) Shigella flexneri 5 str. 8401 4208439 YP_690230.1 CDS SFV_2848 NC_008258.1 2912011 2912310 R Code: L; COG: COG2963; IS3 ORF1 complement(2912011..2912310) Shigella flexneri 5 str. 8401 4208498 YP_690231.1 CDS insB NC_008258.1 2912429 2912932 R Code: L; COG: COG1662; IS1 ORF2 complement(2912429..2912932) Shigella flexneri 5 str. 8401 4208499 YP_690232.1 CDS SFV_2850 NC_008258.1 2913007 2913213 D IS1 encoded protein 2913007..2913213 Shigella flexneri 5 str. 8401 4208500 YP_690233.1 CDS intA NC_008258.1 2913326 2914549 R CP4-57 prophage; integrase; integrase complement(2913326..2914549) Shigella flexneri 5 str. 8401 4208501 YP_690234.1 CDS smpB NC_008258.1 2915331 2915813 R 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 complement(2915331..2915813) Shigella flexneri 5 str. 8401 4208502 YP_690235.1 CDS SFV_2853 NC_008258.1 2916327 2916701 D Code: S; COG: COG2914; hypothetical protein 2916327..2916701 Shigella flexneri 5 str. 8401 4208503 YP_690236.2 CDS smpA NC_008258.1 2916763 2917104 R Code: J; COG: COG2913; hypothetical protein complement(2916763..2917104) Shigella flexneri 5 str. 8401 4208504 YP_690237.1 CDS recN NC_008258.1 2917253 2918914 R Code: L; COG: COG0497; recombination and repair protein complement(2917253..2918914) Shigella flexneri 5 str. 8401 4208505 YP_690238.1 CDS ppnK NC_008258.1 2919000 2919878 R catalyzes the phosphorylation of NAD to NADP; inorganic polyphosphate/ATP-NAD kinase complement(2919000..2919878) Shigella flexneri 5 str. 8401 4208506 YP_690239.1 CDS grpE NC_008258.1 2920001 2920594 D 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 2920001..2920594 Shigella flexneri 5 str. 8401 4208507 YP_690240.1 CDS yfjD NC_008258.1 2920649 2921911 R Code: P; COG: COG4536; hypothetical protein complement(2920649..2921911) Shigella flexneri 5 str. 8401 4208508 YP_690241.1 CDS SFV_2859 NC_008258.1 2921956 2922822 R Code: R; COG: COG4137; hypothetical protein complement(2921956..2922822) Shigella flexneri 5 str. 8401 4208509 YP_690242.1 CDS ffh NC_008258.1 2922914 2924275 D with 4.5S RNA forms a signal recognition particle involved in targeting and integration of inner membrane proteins; signal recognition particle protein 2922914..2924275 Shigella flexneri 5 str. 8401 4208510 YP_690243.1 CDS rpsP NC_008258.1 2924352 2924660 D 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 2924352..2924660 Shigella flexneri 5 str. 8401 4208511 YP_690244.1 CDS rimM NC_008258.1 2924679 2925227 D Essential for efficient processing of 16S rRNA; 16S rRNA-processing protein RimM 2924679..2925227 Shigella flexneri 5 str. 8401 4208512 YP_690245.1 CDS trmD NC_008258.1 2925258 2926025 D 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 2925258..2926025 Shigella flexneri 5 str. 8401 4208513 YP_690246.1 CDS rplS NC_008258.1 2926067 2926414 D 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 2926067..2926414 Shigella flexneri 5 str. 8401 4208514 YP_690247.1 CDS yfiB NC_008258.1 2926491 2926973 R Code: M; COG: COG2885; outer membrane lipoprotein complement(2926491..2926973) Shigella flexneri 5 str. 8401 4208515 YP_690248.1 CDS yfiN NC_008258.1 2926989 2927675 R Code: T; COG: COG2199; hypothetical protein complement(2926989..2927675) Shigella flexneri 5 str. 8401 4208516 YP_690249.1 CDS SFV_2867 NC_008258.1 2927855 2928211 R hypothetical protein complement(2927855..2928211) Shigella flexneri 5 str. 8401 4210287 YP_690250.1 CDS SFV_2868 NC_008258.1 2928204 2928722 R hypothetical protein complement(2928204..2928722) Shigella flexneri 5 str. 8401 4210288 YP_690251.1 CDS yfiL NC_008258.1 2928872 2929237 R hypothetical protein complement(2928872..2929237) Shigella flexneri 5 str. 8401 4210289 YP_690252.1 CDS aroF NC_008258.1 2929447 2930517 D 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 2929447..2930517 Shigella flexneri 5 str. 8401 4210290 YP_690253.1 CDS tyrA NC_008258.1 2930528 2931649 D catalyzes the formation of prephenate from chorismate and the formation of 4-hydroxyphenylpyruvate from prephenate in tyrosine biosynthesis; bifunctional chorismate mutase/prephenate dehydrogenase 2930528..2931649 Shigella flexneri 5 str. 8401 4210291 YP_690254.1 CDS pheA NC_008258.1 2931692 2932852 R catalyzing the formation of prephenate from chorismate and the formation of phenylpyruvate from prephenate in phenylalanine biosynthesis; bifunctional chorismate mutase/prephenate dehydratase complement(2931692..2932852) Shigella flexneri 5 str. 8401 4210292 YP_690255.1 CDS yfiA NC_008258.1 2933102 2933443 R associated with 30S ribosomal subunit; interferes with translation elongation; translation inhibitor protein RaiA complement(2933102..2933443) Shigella flexneri 5 str. 8401 4210293 YP_690256.1 CDS SFV_2874 NC_008258.1 2933757 2935103 D Code: L; COG: COG3385; IS4 orf 2933757..2935103 Shigella flexneri 5 str. 8401 4210294 YP_690257.1 CDS sdaC NC_008258.1 2935667 2936956 D Code: E; COG: COG0814; serine transporter 2935667..2936956 Shigella flexneri 5 str. 8401 4210295 YP_690258.1 CDS sdaB NC_008258.1 2937014 2938381 D Code: E; COG: COG1760; L-serine dehydratase 2937014..2938381 Shigella flexneri 5 str. 8401 4210296 YP_690259.1 CDS xni NC_008258.1 2938402 2939247 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 2938402..2939247 Shigella flexneri 5 str. 8401 4210297 YP_690260.1 CDS fucO NC_008258.1 2939300 2940448 R Code: C; COG: COG1454; L-1,2-propanediol oxidoreductase complement(2939300..2940448) Shigella flexneri 5 str. 8401 4210298 YP_690261.1 CDS fucA NC_008258.1 2940476 2941123 R catalyzes the formation of glycerone phosphate and (S)-lactaldehyde from L-fuculose 1-phosphate; L-fuculose phosphate aldolase complement(2940476..2941123) Shigella flexneri 5 str. 8401 4210299 YP_690262.1 CDS fucP NC_008258.1 2941670 2942986 D Code: G; COG: COG0738; L-fucose transporter 2941670..2942986 Shigella flexneri 5 str. 8401 4210300 YP_690263.1 CDS fucI NC_008258.1 2943019 2944794 D catalyzes the conversion of the aldose L-fucose into the corresponding ketose L-fuculose; L-fucose isomerase 2943019..2944794 Shigella flexneri 5 str. 8401 4210301 YP_690264.1 CDS fucU NC_008258.1 2946324 2946746 D Code: G; COG: COG4154; protein of fucose operon 2946324..2946746 Shigella flexneri 5 str. 8401 4210303 YP_690265.1 CDS fucR NC_008258.1 2946804 2947535 D regulates expression of genes involved in L-fucose utilization; DNA-binding transcriptional activator FucR 2946804..2947535 Shigella flexneri 5 str. 8401 4210304 YP_690266.1 CDS ygdE NC_008258.1 2947579 2948679 R Code: R; COG: COG2933; RNA 2'-O-ribose methyltransferase complement(2947579..2948679) Shigella flexneri 5 str. 8401 4210305 YP_690267.1 CDS ygdD NC_008258.1 2948672 2949067 R Code: S; COG: COG2363; hypothetical protein complement(2948672..2949067) Shigella flexneri 5 str. 8401 4210306 YP_690268.1 CDS gcvA NC_008258.1 2949086 2950003 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(2949086..2950003) Shigella flexneri 5 str. 8401 4209252 YP_690269.1 CDS SFV_2888 NC_008258.1 2950354 2950581 R hypothetical protein complement(2950354..2950581) Shigella flexneri 5 str. 8401 4209253 YP_690270.1 CDS SFV_2889 NC_008258.1 2950773 2951978 D Code: E; COG: COG0520; cysteine sulfinate desulfinase 2950773..2951978 Shigella flexneri 5 str. 8401 4209254 YP_690271.1 CDS ygdK NC_008258.1 2951978 2952421 D Code: R; COG: COG2166; hypothetical protein 2951978..2952421 Shigella flexneri 5 str. 8401 4209255 YP_690272.1 CDS ygdL NC_008258.1 2952472 2953278 R Code: H; COG: COG1179; hypothetical protein complement(2952472..2953278) Shigella flexneri 5 str. 8401 4209256 YP_690273.1 CDS mltA NC_008258.1 2953517 2954614 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(2953517..2954614) Shigella flexneri 5 str. 8401 4209257 YP_690274.1 CDS SFV_2895 NC_008258.1 2955084 2956337 R Code: M; COG: COG0860; amidase complement(2955084..2956337) Shigella flexneri 5 str. 8401 4209260 YP_690275.1 CDS argA NC_008258.1 2956569 2957900 D amino acid acetyltransferase; catalyzes the formation of N-acetyl-L-glutamate from L-glutamate and acetyl-CoA in arginine biosynthesis; N-acetylglutamate synthase 2956569..2957900 Shigella flexneri 5 str. 8401 4209261 YP_690276.1 CDS recD NC_008258.1 2957962 2959788 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(2957962..2959788) Shigella flexneri 5 str. 8401 4209262 YP_690277.1 CDS recB NC_008258.1 2959788 2963330 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(2959788..2963330) Shigella flexneri 5 str. 8401 4209263 YP_690278.1 CDS ptr NC_008258.1 2963323 2966211 R Code: O; COG: COG1025; protease III complement(2963323..2966211) Shigella flexneri 5 str. 8401 4209264 YP_690279.1 CDS recC NC_008258.1 2966387 2969755 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(2966387..2969755) Shigella flexneri 5 str. 8401 4209265 YP_690280.1 CDS ppdC NC_008258.1 2969768 2970091 R Code: NU; COG: COG4967; hypothetical protein complement(2969768..2970091) Shigella flexneri 5 str. 8401 4209266 YP_690281.1 CDS ygdB NC_008258.1 2970076 2970483 R hypothetical protein complement(2970076..2970483) Shigella flexneri 5 str. 8401 4209267 YP_690282.1 CDS ppdB NC_008258.1 2970480 2971043 R Code: U; COG: COG4795; hypothetical protein complement(2970480..2971043) Shigella flexneri 5 str. 8401 4209268 YP_690283.1 CDS thyA NC_008258.1 2971688 2972482 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(2971688..2972482) Shigella flexneri 5 str. 8401 4207209 YP_690284.1 CDS lgt NC_008258.1 2972489 2973304 R transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein; prolipoprotein diacylglyceryl transferase complement(2972489..2973304) Shigella flexneri 5 str. 8401 4207210 YP_690285.1 CDS ptsP NC_008258.1 2973515 2975761 R member of a second PTS chain involved in nitrogen metabolism; PtsP phosphorylates NPr; fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain complement(2973515..2975761) Shigella flexneri 5 str. 8401 4207211 YP_690286.1 CDS ygdP NC_008258.1 2975774 2976304 R hydrolyzes diadenosine polyphosphate; dinucleoside polyphosphate hydrolase complement(2975774..2976304) Shigella flexneri 5 str. 8401 4207212 YP_690287.1 CDS mutH NC_008258.1 2976989 2977678 D MutH; Sequence-specific endonuclease that cleaves unmethylated GATC sequences during DNA repair; DNA mismatch repair protein 2976989..2977678 Shigella flexneri 5 str. 8401 4207213 YP_690288.1 CDS SFV_2910 NC_008258.1 2977747 2978460 D Code: P; COG: COG0861; transport protein 2977747..2978460 Shigella flexneri 5 str. 8401 4207214 YP_690289.1 CDS SFV_2911 NC_008258.1 2978598 2978816 D hypothetical protein 2978598..2978816 Shigella flexneri 5 str. 8401 4207215 YP_690290.1 CDS tas NC_008258.1 2978924 2979964 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 2978924..2979964 Shigella flexneri 5 str. 8401 4207216 YP_690291.1 CDS ygeD NC_008258.1 2979997 2981142 R Code: GEPR; COG: COG0477; lysophospholipid transporter LplT complement(2979997..2981142) Shigella flexneri 5 str. 8401 4207217 YP_690292.1 CDS aas NC_008258.1 2981180 2983339 R 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(2981180..2983339) Shigella flexneri 5 str. 8401 4207218 YP_690293.1 CDS galR NC_008258.1 2983925 2984956 D controls transcription of galETKM; DNA-binding transcriptional regulator GalR 2983925..2984956 Shigella flexneri 5 str. 8401 4207219 YP_690294.1 CDS lysA NC_008258.1 2984963 2986225 R catalyzes the decarboxylation of diaminopimelate into lysine; pyridoxal phosphate(PLP)-binding; diaminopimelate decarboxylase complement(2984963..2986225) Shigella flexneri 5 str. 8401 4207220 YP_690295.1 CDS lysR NC_008258.1 2986347 2987282 D activates the transcription of the lysA gene encoding diaminopimelate decarboxylase; LysR family transcriptional regulator 2986347..2987282 Shigella flexneri 5 str. 8401 4207221 YP_690296.1 CDS ygeA NC_008258.1 2987269 2988282 R Code: M; COG: COG1794; resistance proteins complement(2987269..2988282) Shigella flexneri 5 str. 8401 4207222 YP_690297.1 CDS araE NC_008258.1 2988292 2989635 R Code: GEPR; COG: COG0477; low-affinity L-arabinose transport system proton symport protein complement(2988292..2989635) Shigella flexneri 5 str. 8401 4207223 YP_690298.1 CDS kduD NC_008258.1 2989821 2990582 R catalyzes the formation of 3-dehydro-2-deoxy-D-gluconate from 2-deoxy-D-gluconate; 2-deoxy-D-gluconate 3-dehydrogenase complement(2989821..2990582) Shigella flexneri 5 str. 8401 4207224 YP_690299.1 CDS kduI NC_008258.1 2990612 2991448 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(2990612..2991448) Shigella flexneri 5 str. 8401 4207225 YP_690300.1 CDS yqeF NC_008258.1 2991735 2992916 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(2991735..2992916) Shigella flexneri 5 str. 8401 4207226 YP_690301.1 CDS SFV_2924 NC_008258.1 2995030 2995329 D Code: L; COG: COG2963; IS3 ORF1 2995030..2995329 Shigella flexneri 5 str. 8401 4209155 YP_690302.1 CDS SFV_2925 NC_008258.1 2995326 2996192 D Code: L; COG: COG2801; IS3 ORF2 2995326..2996192 Shigella flexneri 5 str. 8401 4209156 YP_690303.1 CDS SFV_2926 NC_008258.1 2996206 2996799 R hypothetical protein complement(2996206..2996799) Shigella flexneri 5 str. 8401 4209157 YP_690304.1 CDS SFV_2928 NC_008258.1 2997143 2997898 R Code: M; COG: COG0739; lipoprotein complement(2997143..2997898) Shigella flexneri 5 str. 8401 4209159 YP_690305.1 CDS SFV_2929 NC_008258.1 2997932 2998189 R IS1 encoded protein complement(2997932..2998189) Shigella flexneri 5 str. 8401 4209160 YP_690306.1 CDS insB NC_008258.1 2998264 2998767 D Code: L; COG: COG1662; IS1 ORF2 2998264..2998767 Shigella flexneri 5 str. 8401 4209161 YP_690307.1 CDS SFV_2931 NC_008258.1 2999090 3001387 D molybdenum cofactor-binding protein; participates in purine salvage; xanthine dehydrogenase subunit XdhA 2999090..3001387 Shigella flexneri 5 str. 8401 4209162 YP_690308.1 CDS ygeT NC_008258.1 3001398 3002276 D FAD-binding subunit; with XdhA and XdhC participates in purine salvage; xanthine dehydrogenase subunit XdhB 3001398..3002276 Shigella flexneri 5 str. 8401 4209163 YP_690309.1 CDS SFV_2933 NC_008258.1 3002273 3002752 D iron-sulfur-binding subunit; with XdhA and XdhB participates in purine salvage; xanthine dehydrogenase subunit XdhC 3002273..3002752 Shigella flexneri 5 str. 8401 4209164 YP_690310.1 CDS SFV_2934 NC_008258.1 3002772 3002984 R IS1 encoded protein complement(3002772..3002984) Shigella flexneri 5 str. 8401 4209165 YP_690311.1 CDS insB NC_008258.1 3003059 3003562 D Code: L; COG: COG1662; IS1 ORF2 3003059..3003562 Shigella flexneri 5 str. 8401 4209166 YP_690312.1 CDS ygfU NC_008258.1 3003887 3005335 D Code: F; COG: COG2233; permease 3003887..3005335 Shigella flexneri 5 str. 8401 4209167 YP_690313.1 CDS SFV_2937 NC_008258.1 3005585 3006133 D catalyzes the rearrangement of isopentenyl diphosphate to dimethylallyl phosphate; isopentenyl-diphosphate delta-isomerase 3005585..3006133 Shigella flexneri 5 str. 8401 4209168 YP_690314.1 CDS lysS NC_008258.1 3006176 3007693 R 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 complement(3006176..3007693) Shigella flexneri 5 str. 8401 4209169 YP_690315.1 CDS recJ NC_008258.1 3008892 3010484 R 5'-3' single-stranded-DNA-specific exonuclease; ssDNA exonuclease RecJ complement(3008892..3010484) Shigella flexneri 5 str. 8401 4209171 YP_690316.1 CDS dsbC NC_008258.1 3010631 3011341 R DsbC; periplasmic protein with protein disulfide isomerase activity; this protein also shows disulfide oxidoreductase activity; thiol:disulfide interchange protein DsbC complement(3010631..3011341) Shigella flexneri 5 str. 8401 4209172 YP_690317.1 CDS xerD NC_008258.1 3011366 3012262 R 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 complement(3011366..3012262) Shigella flexneri 5 str. 8401 4208707 YP_690318.1 CDS fldB NC_008258.1 3012374 3012895 D An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic; flavodoxin FldB 3012374..3012895 Shigella flexneri 5 str. 8401 4208708 YP_690319.1 CDS SFV_2944 NC_008258.1 3012935 3013342 R hypothetical protein complement(3012935..3013342) Shigella flexneri 5 str. 8401 4208709 YP_690320.1 CDS ygfY NC_008258.1 3013323 3013589 R Code: S; COG: COG2938; hypothetical protein complement(3013323..3013589) Shigella flexneri 5 str. 8401 4208710 YP_690321.1 CDS ygfZ NC_008258.1 3013832 3014812 D 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 3013832..3014812 Shigella flexneri 5 str. 8401 4208711 YP_690322.1 CDS SFV_2947 NC_008258.1 3015008 3015667 R Code: R; COG: COG1272; oxidoreductase complement(3015008..3015667) Shigella flexneri 5 str. 8401 4208712 YP_690323.1 CDS SFV_2948 NC_008258.1 3015831 3016031 R Code: S; COG: COG3097; hypothetical protein complement(3015831..3016031) Shigella flexneri 5 str. 8401 4208713 YP_690324.1 CDS bglA NC_008258.1 3016180 3017520 D Code: G; COG: COG2723; 6-phospho-beta-glucosidase 3016180..3017520 Shigella flexneri 5 str. 8401 4208714 YP_690325.1 CDS gcvP NC_008258.1 3018685 3021558 R acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine; glycine dehydrogenase complement(3018685..3021558) Shigella flexneri 5 str. 8401 4208716 YP_690326.1 CDS gcvH NC_008258.1 3021677 3022066 R 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 complement(3021677..3022066) Shigella flexneri 5 str. 8401 4208717 YP_690327.1 CDS gcvT NC_008258.1 3022090 3023184 R 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 complement(3022090..3023184) Shigella flexneri 5 str. 8401 4208718 YP_690328.1 CDS visC NC_008258.1 3023632 3024834 R Code: HC; COG: COG0654; hypothetical protein complement(3023632..3024834) Shigella flexneri 5 str. 8401 4208719 YP_690329.1 CDS ubiH NC_008258.1 3024857 3026035 R 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 complement(3024857..3026035) Shigella flexneri 5 str. 8401 4208720 YP_690330.1 CDS pepP NC_008258.1 3026032 3027357 R 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 complement(3026032..3027357) Shigella flexneri 5 str. 8401 4208721 YP_690331.1 CDS ygfB NC_008258.1 3027383 3027967 R the crystal structure of Haemophilus influenzae HI0817 showed that this protein forms dimers; function unknown; hypothetical protein complement(3027383..3027967) Shigella flexneri 5 str. 8401 4208722 YP_690332.1 CDS ygfE NC_008258.1 3028129 3028458 D Code: S; COG: COG3027; Z-ring-associated protein 3028129..3028458 Shigella flexneri 5 str. 8401 4208723 YP_690333.2 CDS ygfA NC_008258.1 3028758 3029306 D ygfA expression increases five to eight fold in Escherichia coli cells growing as biofilms; unknown function; ligase 3028758..3029306 Shigella flexneri 5 str. 8401 4208724 YP_690334.1 CDS serA NC_008258.1 3030087 3031319 R 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 complement(3030087..3031319) Shigella flexneri 5 str. 8401 4208725 YP_690335.1 CDS rpiA NC_008258.1 3031575 3032234 R Catalyzes D-ribose 5-phosphate --> D-ribulose 5-phosphate in the nonoxidative branch of the pentose phosphate pathway; ribose-5-phosphate isomerase A complement(3031575..3032234) Shigella flexneri 5 str. 8401 4208726 YP_690336.1 CDS iciA NC_008258.1 3032617 3033510 D 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 3032617..3033510 Shigella flexneri 5 str. 8401 4209288 YP_690337.1 CDS sbm NC_008258.1 3033714 3035858 D MDM; functions in conversion of succinate to propionate; methylmalonyl-CoA mutase 3033714..3035858 Shigella flexneri 5 str. 8401 4209289 YP_690338.1 CDS ygfD NC_008258.1 3035851 3036846 D 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 3035851..3036846 Shigella flexneri 5 str. 8401 4209290 YP_690339.1 CDS ygfG NC_008258.1 3036857 3037642 D catalyzes the formation of propanoyl-CoA from methylmalonyl-CoA; methylmalonyl-CoA decarboxylase 3036857..3037642 Shigella flexneri 5 str. 8401 4209291 YP_690340.1 CDS ygfH NC_008258.1 3037666 3039144 D Code: C; COG: COG0427; coenzyme A transferase 3037666..3039144 Shigella flexneri 5 str. 8401 4209292 YP_690341.1 CDS SFV_2967 NC_008258.1 3039614 3040036 R LysR family transcriptional regulator complement(3039614..3040036) Shigella flexneri 5 str. 8401 4209293 YP_690342.1 CDS yggE NC_008258.1 3040203 3040910 R Code: S; COG: COG2968; hypothetical protein complement(3040203..3040910) Shigella flexneri 5 str. 8401 4209294 YP_690343.1 CDS yggA NC_008258.1 3041036 3041629 R Involved in the export of arginine; arginine exporter protein complement(3041036..3041629) Shigella flexneri 5 str. 8401 4209295 YP_690344.1 CDS yggB NC_008258.1 3041810 3042670 R participates in the regulation of osmotic pressure changes within the cel; mechanosensitive ion channel MscS complement(3041810..3042670) Shigella flexneri 5 str. 8401 4209296 YP_690345.2 CDS fba NC_008258.1 3042861 3043940 R catalyzes the formation of glycerone phosphate and glyceraldehyde 3-phosphate from fructose 1,6, bisphosphate; fructose-bisphosphate aldolase complement(3042861..3043940) Shigella flexneri 5 str. 8401 4209297 YP_690346.1 CDS pgk NC_008258.1 3044155 3045318 R Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway; phosphoglycerate kinase complement(3044155..3045318) Shigella flexneri 5 str. 8401 4209298 YP_690347.1 CDS epd NC_008258.1 3045368 3046387 R NAD-dependent; catalyzes the formation of 4-phosphoerythronate from erythrose 4-phosphate in the biosynthesis of pyridoxine 5'-phosphate; erythrose 4-phosphate dehydrogenase complement(3045368..3046387) Shigella flexneri 5 str. 8401 4209299 YP_690348.1 CDS SFV_2974 NC_008258.1 3046759 3047190 D Code: R; COG: COG1661; hypothetical protein 3046759..3047190 Shigella flexneri 5 str. 8401 4209300 YP_690349.1 CDS SFV_2975 NC_008258.1 3047213 3047791 D inner membrane protein 3047213..3047791 Shigella flexneri 5 str. 8401 4209301 YP_690350.1 CDS SFV_2976 NC_008258.1 3047792 3048100 D lipoprotein 3047792..3048100 Shigella flexneri 5 str. 8401 4209302 YP_690351.1 CDS SFV_2977 NC_008258.1 3048101 3048499 D lipoprotein 3048101..3048499 Shigella flexneri 5 str. 8401 4209303 YP_690352.1 CDS SFV_2978 NC_008258.1 3048487 3049164 D Code: P; COG: COG1122; ABC transporter ATP-binding protein 3048487..3049164 Shigella flexneri 5 str. 8401 4209304 YP_690353.1 CDS SFV_2979 NC_008258.1 3049302 3049835 D Code: P; COG: COG1118; ABC transporter ATP-binding protein 3049302..3049835 Shigella flexneri 5 str. 8401 4209305 YP_690354.1 CDS frcK NC_008258.1 3049807 3050520 R Code: H; COG: COG1072; fructose transport system kinase complement(3049807..3050520) Shigella flexneri 5 str. 8401 4209306 YP_690355.1 CDS yggD NC_008258.1 3050517 3051026 R Code: K; COG: COG3722; DNA-binding transcriptional regulator complement(3050517..3051026) Shigella flexneri 5 str. 8401 4210113 YP_690356.1 CDS yggF NC_008258.1 3051048 3052013 R Code: G; COG: COG1494; fructose-1,6-bisphosphatase II-like protein complement(3051048..3052013) Shigella flexneri 5 str. 8401 4210114 YP_690357.1 CDS SFV_2983 NC_008258.1 3052010 3053251 R Code: ER; COG: COG1063; oxidoreductase complement(3052010..3053251) Shigella flexneri 5 str. 8401 4210115 YP_690358.1 CDS insB NC_008258.1 3053253 3053756 R Code: L; COG: COG1662; IS1 ORF2 complement(3053253..3053756) Shigella flexneri 5 str. 8401 4210116 YP_690359.1 CDS SFV_2985 NC_008258.1 3053831 3054049 D IS1 encoded protein 3053831..3054049 Shigella flexneri 5 str. 8401 4210117 YP_690360.1 CDS SFV_2986 NC_008258.1 3054313 3055221 D Code: O; COG: COG0330; serine protease 3054313..3055221 Shigella flexneri 5 str. 8401 4210118 YP_690361.1 CDS tktA NC_008258.1 3055267 3057258 R 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 complement(3055267..3057258) Shigella flexneri 5 str. 8401 4210119 YP_690362.1 CDS yggG NC_008258.1 3057317 3058294 D Code: O; COG: COG0501; hypothetical protein 3057317..3058294 Shigella flexneri 5 str. 8401 4210120 YP_690363.1 CDS speB NC_008258.1 3058495 3059415 R catalyzes the formation of putrescine from agmatine; agmatinase complement(3058495..3059415) Shigella flexneri 5 str. 8401 4210121 YP_690364.1 CDS SFV_2990 NC_008258.1 3059551 3059925 R lipoprotein complement(3059551..3059925) Shigella flexneri 5 str. 8401 4210122 YP_690365.1 CDS insB NC_008258.1 3059951 3060454 R Code: L; COG: COG1662; IS1 ORF2 complement(3059951..3060454) Shigella flexneri 5 str. 8401 4210123 YP_690366.1 CDS SFV_2992 NC_008258.1 3060529 3060717 D IS1 encoded protein 3060529..3060717 Shigella flexneri 5 str. 8401 4210124 YP_690367.1 CDS speA NC_008258.1 3060795 3062693 R catalyzes the formation of agmatine from arginine in putrescine and spermidine biosynthesis; arginine decarboxylase complement(3060795..3062693) Shigella flexneri 5 str. 8401 4210125 YP_690368.1 CDS yqgB NC_008258.1 3062780 3062926 R hypothetical protein complement(3062780..3062926) Shigella flexneri 5 str. 8401 4210126 YP_690369.1 CDS yqgD NC_008258.1 3063259 3063510 R hypothetical protein complement(3063259..3063510) Shigella flexneri 5 str. 8401 4210127 YP_690370.1 CDS metK NC_008258.1 3063566 3064720 D catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase; S-adenosylmethionine synthetase 3063566..3064720 Shigella flexneri 5 str. 8401 4210128 YP_690371.1 CDS galP NC_008258.1 3065155 3066549 D Code: GEPR; COG: COG0477; galactose:proton symporter, MFS family 3065155..3066549 Shigella flexneri 5 str. 8401 4210129 YP_690372.1 CDS sprT NC_008258.1 3066626 3067123 D Code: S; COG: COG3091; hypothetical protein 3066626..3067123 Shigella flexneri 5 str. 8401 4210130 YP_690373.1 CDS endA NC_008258.1 3067218 3067925 D Code: L; COG: COG2356; DNA-specific endonuclease I 3067218..3067925 Shigella flexneri 5 str. 8401 4210131 YP_690374.1 CDS yggJ NC_008258.1 3068005 3068736 D 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 3068005..3068736 Shigella flexneri 5 str. 8401 4210132 YP_690375.1 CDS gshB NC_008258.1 3068749 3069699 D catalyzes the second step in the glutathione biosynthesis pathway, where it synthesizes ATP + gamma-L-glutamyl-L-cysteine + glycine = ADP + phosphate + glutathione; glutathione synthetase 3068749..3069699 Shigella flexneri 5 str. 8401 4210748 YP_690376.1 CDS yqgE NC_008258.1 3069736 3070371 D Code: K; COG: COG1678; hypothetical protein 3069736..3070371 Shigella flexneri 5 str. 8401 4210749 YP_690377.1 CDS yqgF NC_008258.1 3070371 3070787 D similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function; Holliday junction resolvase-like protein 3070371..3070787 Shigella flexneri 5 str. 8401 4210750 YP_690378.1 CDS yggR NC_008258.1 3070963 3071943 R Code: NU; COG: COG2805; transport protein complement(3070963..3071943) Shigella flexneri 5 str. 8401 4210751 YP_690379.1 CDS yggS NC_008258.1 3071961 3072665 D Code: R; COG: COG0325; hypothetical protein 3071961..3072665 Shigella flexneri 5 str. 8401 4210752 YP_690380.1 CDS yggT NC_008258.1 3072683 3073249 D Code: S; COG: COG0762; resistance protein 3072683..3073249 Shigella flexneri 5 str. 8401 4210753 YP_690381.1 CDS yggU NC_008258.1 3073234 3073536 D Code: S; COG: COG1872; hypothetical protein 3073234..3073536 Shigella flexneri 5 str. 8401 4210754 YP_690382.1 CDS yggV NC_008258.1 3073544 3074137 D 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 3073544..3074137 Shigella flexneri 5 str. 8401 4210755 YP_690383.1 CDS yggW NC_008258.1 3074130 3075266 D catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III; coproporphyrinogen III oxidase 3074130..3075266 Shigella flexneri 5 str. 8401 4210756 YP_690384.1 CDS SFV_3010 NC_008258.1 3075580 3075933 D hypothetical protein 3075580..3075933 Shigella flexneri 5 str. 8401 4210757 YP_690385.1 CDS SFV_3011 NC_008258.1 3075950 3076543 D hypothetical protein 3075950..3076543 Shigella flexneri 5 str. 8401 4210758 YP_690386.1 CDS SFV_3012 NC_008258.1 3076588 3077091 D Code: G; COG: COG3090; hypothetical protein 3076588..3077091 Shigella flexneri 5 str. 8401 4210759 YP_690387.1 CDS SFV_3013 NC_008258.1 3077091 3078392 D Code: G; COG: COG1593; hypothetical protein 3077091..3078392 Shigella flexneri 5 str. 8401 4210760 YP_690388.1 CDS yggM NC_008258.1 3078448 3079419 R alpha helix chain complement(3078448..3079419) Shigella flexneri 5 str. 8401 4210761 YP_690389.1 CDS ansB NC_008258.1 3079572 3080618 R catalyzes the formation of aspartate from asparagine, periplasmic; regulated by cyclic AMP receptor protein (CRP) and also induced by anaerobiosis; L-asparaginase II complement(3079572..3080618) Shigella flexneri 5 str. 8401 4210762 YP_690390.1 CDS yggN NC_008258.1 3080794 3081510 R hypothetical protein complement(3080794..3081510) Shigella flexneri 5 str. 8401 4210763 YP_690391.1 CDS yggL NC_008258.1 3081697 3082023 R Code: S; COG: COG3171; hypothetical protein complement(3081697..3082023) Shigella flexneri 5 str. 8401 4210764 YP_690392.1 CDS trmB NC_008258.1 3082023 3082742 R 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 complement(3082023..3082742) Shigella flexneri 5 str. 8401 4210765 YP_690393.1 CDS mutY NC_008258.1 3082873 3083955 D Code: L; COG: COG1194; adenine DNA glycosylase 3082873..3083955 Shigella flexneri 5 str. 8401 4210766 YP_690394.1 CDS SFV_3021 NC_008258.1 3083932 3084225 R hypothetical protein complement(3083932..3084225) Shigella flexneri 5 str. 8401 4210861 YP_690395.1 CDS yggX NC_008258.1 3083983 3084258 D Code: CO; COG: COG2924; hypothetical protein 3083983..3084258 Shigella flexneri 5 str. 8401 4210860 YP_690396.1 CDS mltC NC_008258.1 3084320 3085402 D 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 3084320..3085402 Shigella flexneri 5 str. 8401 4210862 YP_690397.1 CDS nupG NC_008258.1 3085604 3086860 D Code: GEPR; COG: COG0477; nucleoside transporter permease 3085604..3086860 Shigella flexneri 5 str. 8401 4210863 YP_690398.1 CDS speC NC_008258.1 3086909 3089104 R Code: E; COG: COG1982; ornithine decarboxylase complement(3086909..3089104) Shigella flexneri 5 str. 8401 4210864 YP_690399.1 CDS yqgA NC_008258.1 3089442 3090149 D Code: R; COG: COG1811; transport protein 3089442..3090149 Shigella flexneri 5 str. 8401 4210865 YP_690400.1 CDS SFV_3027 NC_008258.1 3090930 3091220 D hypothetical protein 3090930..3091220 Shigella flexneri 5 str. 8401 4210867 YP_690401.1 CDS insB NC_008258.1 3091359 3091862 R Code: L; COG: COG1662; IS1 ORF2 complement(3091359..3091862) Shigella flexneri 5 str. 8401 4210868 YP_690402.1 CDS SFV_3029 NC_008258.1 3091937 3092239 D IS1 encoded protein 3091937..3092239 Shigella flexneri 5 str. 8401 4210869 YP_690403.1 CDS yghK NC_008258.1 3093450 3095045 R Code: C; COG: COG1620; permease complement(3093450..3095045) Shigella flexneri 5 str. 8401 4210870 YP_690404.1 CDS glcB NC_008258.1 3095400 3097571 R catalyzes the formation of malate from glyoxylate and acetyl-CoA; malate synthase G complement(3095400..3097571) Shigella flexneri 5 str. 8401 4210871 YP_690405.1 CDS glcG NC_008258.1 3097593 3097997 R Code: R; COG: COG3193; hypothetical protein complement(3097593..3097997) Shigella flexneri 5 str. 8401 4210872 YP_690406.1 CDS glcC NC_008258.1 3102034 3102876 D Code: K; COG: COG2186; DNA-binding transcriptional regulator GlcC 3102034..3102876 Shigella flexneri 5 str. 8401 4210875 YP_690407.1 CDS SFV_3036 NC_008258.1 3102935 3103264 R hypothetical protein complement(3102935..3103264) Shigella flexneri 5 str. 8401 4210876 YP_690408.1 CDS SFV_3037 NC_008258.1 3103231 3104076 R hypothetical protein complement(3103231..3104076) Shigella flexneri 5 str. 8401 4210877 YP_690409.1 CDS SFV_3038 NC_008258.1 3104285 3104536 R IS1 encoded protein complement(3104285..3104536) Shigella flexneri 5 str. 8401 4210878 YP_690410.1 CDS insB NC_008258.1 3104611 3105114 D Code: L; COG: COG1662; IS1 ORF2 3104611..3105114 Shigella flexneri 5 str. 8401 4210805 YP_690411.1 CDS gsp NC_008258.1 3105688 3107550 R catalyzes the formation of glutathionylspermidine from glutathione and spermidine; also catalyzes the reverse reaction; bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase complement(3105688..3107550) Shigella flexneri 5 str. 8401 4210807 YP_690412.1 CDS SFV_3042 NC_008258.1 3107752 3108618 D YghU; B2989; one of eight glutathione transferases from E. coli; glutathione S-transferase YghU 3107752..3108618 Shigella flexneri 5 str. 8401 4210808 YP_690413.1 CDS hybG NC_008258.1 3108741 3108989 R Code: O; COG: COG0298; hydrogenase 2 accessory protein HypG complement(3108741..3108989) Shigella flexneri 5 str. 8401 4210809 YP_690414.1 CDS hybF NC_008258.1 3109123 3109464 R may modulate levels of hydrogenease-2; plays a role in hydrogenase nickel cofactor insertion; hydrogenase nickel incorporation protein HybF complement(3109123..3109464) Shigella flexneri 5 str. 8401 4210810 YP_690415.1 CDS hybE NC_008258.1 3109457 3109945 R hydrogenase 2-specific chaperone complement(3109457..3109945) Shigella flexneri 5 str. 8401 4210811 YP_690416.1 CDS hybD NC_008258.1 3109938 3110432 R 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 complement(3109938..3110432) Shigella flexneri 5 str. 8401 4210812 YP_690417.1 CDS hybC NC_008258.1 3110432 3112135 R involved in hydrogen uptake; hydrogenase 2 large subunit complement(3110432..3112135) Shigella flexneri 5 str. 8401 4210813 YP_690418.1 CDS hybB NC_008258.1 3112132 3113310 R HybB; cytochrome b subunit of the hydrogenase 2 enzyme, composed of HybA, B, C, and O subunits; hydrogenase 2 b cytochrome subunit complement(3112132..3113310) Shigella flexneri 5 str. 8401 4210814 YP_690419.1 CDS hybA NC_008258.1 3113300 3114286 R Fe-S ferrodoxin type component; participates in the periplasmic electron-transferring activity of hydrogenase 2; hydrogenase 2 protein HybA complement(3113300..3114286) Shigella flexneri 5 str. 8401 4210815 YP_690420.1 CDS SFV_3050 NC_008258.1 3114289 3115353 R involved in hydrogen uptake; hydrogenase 2 small subunit complement(3114289..3115353) Shigella flexneri 5 str. 8401 4210816 YP_690421.1 CDS SFV_3051 NC_008258.1 3115596 3115883 R hypothetical protein complement(3115596..3115883) Shigella flexneri 5 str. 8401 4210817 YP_690422.1 CDS yghYX NC_008258.1 3116002 3116889 R Code: Q; COG: COG0412; hydrolase complement(3116002..3116889) Shigella flexneri 5 str. 8401 4210818 YP_690423.1 CDS SFV_3053 NC_008258.1 3117046 3118086 D Code: C; COG: COG0667; aldo/keto reductase 3117046..3118086 Shigella flexneri 5 str. 8401 4210819 YP_690424.1 CDS yqhA NC_008258.1 3118126 3118650 R Code: S; COG: COG2862; hypothetical protein complement(3118126..3118650) Shigella flexneri 5 str. 8401 4210820 YP_690425.1 CDS yghA NC_008258.1 3118811 3119695 D Code: IQR; COG: COG1028; oxidoreductase 3118811..3119695 Shigella flexneri 5 str. 8401 4210821 YP_690426.1 CDS exbD NC_008258.1 3119967 3120392 R 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(3119967..3120392) Shigella flexneri 5 str. 8401 4210822 YP_690427.1 CDS exbB NC_008258.1 3120399 3121118 R 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(3120399..3121118) Shigella flexneri 5 str. 8401 4210823 YP_690428.1 CDS metC NC_008258.1 3121250 3122572 D catalyzes the formation of L-homocysteine from cystathionine; cystathionine beta-lyase 3121250..3122572 Shigella flexneri 5 str. 8401 4208781 YP_690429.1 CDS yghB NC_008258.1 3122712 3123371 D Code: S; COG: COG0586; hypothetical protein 3122712..3123371 Shigella flexneri 5 str. 8401 4208782 YP_690430.1 CDS yqhD NC_008258.1 3124503 3125666 D Code: C; COG: COG1979; oxidoreductase 3124503..3125666 Shigella flexneri 5 str. 8401 4208783 YP_690431.1 CDS dkgA NC_008258.1 3125771 3126598 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 3125771..3126598 Shigella flexneri 5 str. 8401 4208785 YP_690432.1 CDS yqhG NC_008258.1 3126798 3127724 D hypothetical protein 3126798..3127724 Shigella flexneri 5 str. 8401 4208786 YP_690433.1 CDS yqhH NC_008258.1 3127775 3128032 D Code: M; COG: COG4238; outer membrane lipoprotein 3127775..3128032 Shigella flexneri 5 str. 8401 4208787 YP_690434.1 CDS sufI NC_008258.1 3130365 3131777 R Code: Q; COG: COG2132; repressor protein for FtsI complement(3130365..3131777) Shigella flexneri 5 str. 8401 4208789 YP_690435.1 CDS plsC NC_008258.1 3131852 3132589 R Code: I; COG: COG0204; 1-acyl-sn-glycerol-3-phosphate acyltransferase complement(3131852..3132589) Shigella flexneri 5 str. 8401 4208790 YP_690436.1 CDS parC NC_008258.1 3132823 3135081 R decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling; DNA topoisomerase IV subunit A complement(3132823..3135081) Shigella flexneri 5 str. 8401 4208791 YP_690437.1 CDS SFV_3069 NC_008258.1 3135627 3136109 R Code: L; COG: COG3449; hypothetical protein complement(3135627..3136109) Shigella flexneri 5 str. 8401 4208792 YP_690438.1 CDS ygiW NC_008258.1 3136162 3136554 R Code: S; COG: COG3111; hypothetical protein complement(3136162..3136554) Shigella flexneri 5 str. 8401 4208793 YP_690439.1 CDS qseB NC_008258.1 3136733 3137365 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 3136733..3137365 Shigella flexneri 5 str. 8401 4208794 YP_690440.1 CDS qseC NC_008258.1 3137362 3138711 D quorum sensing Escherichia coli regulator C; Code: T; COG: COG0642; sensor protein QseC 3137362..3138711 Shigella flexneri 5 str. 8401 4208795 YP_690441.1 CDS mdaB NC_008258.1 3139408 3139989 D Code: R; COG: COG2249; modulator of drug activity B 3139408..3139989 Shigella flexneri 5 str. 8401 4208796 YP_690442.1 CDS ygiN NC_008258.1 3140020 3140334 D Code: S; COG: COG1359; hypothetical protein 3140020..3140334 Shigella flexneri 5 str. 8401 4208797 YP_690443.1 CDS parE NC_008258.1 3140382 3142274 R decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling; DNA topoisomerase IV subunit B complement(3140382..3142274) Shigella flexneri 5 str. 8401 4208798 YP_690444.1 CDS yqiA NC_008258.1 3142303 3142884 R Displays esterase activity toward palmitoyl-CoA and pNP-butyrate; esterase complement(3142303..3142884) Shigella flexneri 5 str. 8401 4208799 YP_690445.1 CDS icc NC_008258.1 3142884 3143711 R Code: R; COG: COG1409; cyclic 3',5'-adenosine monophosphate phosphodiesterase complement(3142884..3143711) Shigella flexneri 5 str. 8401 4208800 YP_690446.1 CDS yqiB NC_008258.1 3143736 3144158 R Code: S; COG: COG3151; hypothetical protein complement(3143736..3144158) Shigella flexneri 5 str. 8401 4210710 YP_690447.1 CDS nudF NC_008258.1 3144159 3144788 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 complement(3144159..3144788) Shigella flexneri 5 str. 8401 4210711 YP_690448.1 CDS tolC NC_008258.1 3144993 3146474 D 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 3144993..3146474 Shigella flexneri 5 str. 8401 4210712 YP_690449.1 CDS ygiB NC_008258.1 3146622 3147293 D Code: S; COG: COG5463; hypothetical protein 3146622..3147293 Shigella flexneri 5 str. 8401 4210713 YP_690450.1 CDS ygiC NC_008258.1 3147299 3148459 D Code: E; COG: COG0754; synthetase/amidase 3147299..3148459 Shigella flexneri 5 str. 8401 4210714 YP_690451.1 CDS ygiD NC_008258.1 3148497 3149312 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(3148497..3149312) Shigella flexneri 5 str. 8401 4210715 YP_690452.1 CDS ygiE NC_008258.1 3149428 3150201 D Code: P; COG: COG0428; zinc transporter ZupT 3149428..3150201 Shigella flexneri 5 str. 8401 4210716 YP_690453.1 CDS ribB NC_008258.1 3150690 3151343 R DHBP synthase; functions during riboflavin biosynthesis; 3,4-dihydroxy-2-butanone 4-phosphate synthase complement(3150690..3151343) Shigella flexneri 5 str. 8401 4210717 YP_690454.1 CDS SFV_3086 NC_008258.1 3151657 3152007 D Code: S; COG: COG2960; hypothetical protein 3151657..3152007 Shigella flexneri 5 str. 8401 4210718 YP_690455.1 CDS SFV_3087 NC_008258.1 3152263 3152628 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 3152263..3152628 Shigella flexneri 5 str. 8401 4210719 YP_690456.2 CDS SFV_3088 NC_008258.1 3152586 3153437 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 3152586..3153437 Shigella flexneri 5 str. 8401 4210720 YP_690457.1 CDS SFV_3089 NC_008258.1 3153416 3153607 R IS1 encoded protein complement(3153416..3153607) Shigella flexneri 5 str. 8401 4210721 YP_690458.1 CDS insB NC_008258.1 3153682 3154185 D Code: L; COG: COG1662; IS1 ORF2 3153682..3154185 Shigella flexneri 5 str. 8401 4210722 YP_690459.1 CDS SFV_3092 NC_008258.1 3156296 3157729 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(3156296..3157729) Shigella flexneri 5 str. 8401 4210724 YP_690460.1 CDS glnE NC_008258.1 3157777 3160704 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(3157777..3160704) Shigella flexneri 5 str. 8401 4210725 YP_690461.1 CDS ygiF NC_008258.1 3160640 3161842 R Code: S; COG: COG3025; hypothetical protein complement(3160640..3161842) Shigella flexneri 5 str. 8401 4210726 YP_690462.1 CDS ygiM NC_008258.1 3162183 3162803 D Code: T; COG: COG3103; signal transduction protein 3162183..3162803 Shigella flexneri 5 str. 8401 4210727 YP_690463.1 CDS cca NC_008258.1 3162867 3164105 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 3162867..3164105 Shigella flexneri 5 str. 8401 4210728 YP_690464.1 CDS bacA NC_008258.1 3164268 3165089 R 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(3164268..3165089) Shigella flexneri 5 str. 8401 4207080 YP_690465.1 CDS folB NC_008258.1 3165180 3165548 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(3165180..3165548) Shigella flexneri 5 str. 8401 4207081 YP_690466.1 CDS ygiH NC_008258.1 3165653 3166270 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 3165653..3166270 Shigella flexneri 5 str. 8401 4207082 YP_690467.1 CDS ygiP NC_008258.1 3166213 3167214 R activates expression of genes required for L-tartrate-dependent anaerobic growth on glycerol; transcriptional activator TtdR complement(3166213..3167214) Shigella flexneri 5 str. 8401 4207083 YP_690468.1 CDS ttdA NC_008258.1 3167421 3168233 D Involved in the tartrate degradation pathway; tartrate dehydratase subunit alpha 3167421..3168233 Shigella flexneri 5 str. 8401 4207084 YP_690469.1 CDS ttdB NC_008258.1 3168261 3168866 D Involved in the tartrate degradation pathway; L(+)-tartrate dehydratase subunit beta 3168261..3168866 Shigella flexneri 5 str. 8401 4207085 YP_690470.1 CDS ygjE NC_008258.1 3168914 3170377 D Code: P; COG: COG0471; hypothetical protein 3168914..3170377 Shigella flexneri 5 str. 8401 4207086 YP_690471.1 CDS ygjD NC_008258.1 3170420 3171433 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(3170420..3171433) Shigella flexneri 5 str. 8401 4207087 YP_690472.1 CDS rpsU NC_008258.1 3171671 3171886 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 3171671..3171886 Shigella flexneri 5 str. 8401 4207088 YP_690473.1 CDS dnaG NC_008258.1 3171997 3173742 D DNA biosynthesis; synthesizes RNA primers at the replication forks; DNA primase 3171997..3173742 Shigella flexneri 5 str. 8401 4207089 YP_690474.1 CDS rpoD NC_008258.1 3173937 3175778 D 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 3173937..3175778 Shigella flexneri 5 str. 8401 4207090 YP_690475.1 CDS SFV_3108 NC_008258.1 3175916 3177262 D Code: L; COG: COG3385; IS4 orf 3175916..3177262 Shigella flexneri 5 str. 8401 4207091 YP_690476.1 CDS ygjF NC_008258.1 3177294 3177800 R Code: L; COG: COG3663; G/U mismatch-specific DNA glycosylase complement(3177294..3177800) Shigella flexneri 5 str. 8401 4207092 YP_690477.1 CDS yqjI NC_008258.1 3179076 3179699 D Code: K; COG: COG1695; hypothetical protein 3179076..3179699 Shigella flexneri 5 str. 8401 4207095 YP_690478.1 CDS ygjG NC_008258.1 3181791 3183170 D catalyzes the formation of 4-aminobutyraldehyde from putrescine and 2-oxoglutarate; putrescine--2-oxoglutarate aminotransferase 3181791..3183170 Shigella flexneri 5 str. 8401 4207097 YP_690479.1 CDS ebgR NC_008258.1 3183763 3184746 D Code: K; COG: COG1609; DNA-binding transcriptional repressor EbgR 3183763..3184746 Shigella flexneri 5 str. 8401 4207547 YP_690480.1 CDS ebgA NC_008258.1 3184930 3188016 D in Escherichia coli this is the second beta-galactosidase system; cryptic beta-D-galactosidase subunit alpha 3184930..3188016 Shigella flexneri 5 str. 8401 4207548 YP_690481.1 CDS ebgC NC_008258.1 3188013 3188462 D in Escherichia coli this is the second beta-galactosidase system; cryptic beta-D-galactosidase subunit beta 3188013..3188462 Shigella flexneri 5 str. 8401 4207549 YP_690482.1 CDS ygjI NC_008258.1 3188525 3189958 D Code: E; COG: COG0531; oxidoreductase 3188525..3189958 Shigella flexneri 5 str. 8401 4207550 YP_690483.1 CDS ygjL NC_008258.1 3193757 3195775 D NADPH dehydrogenase 3193757..3195775 Shigella flexneri 5 str. 8401 4207553 YP_690484.1 CDS ygjM NC_008258.1 3195820 3196236 R Code: K; COG: COG5499; hypothetical protein complement(3195820..3196236) Shigella flexneri 5 str. 8401 4207554 YP_690485.1 CDS ygjN NC_008258.1 3196233 3196547 R Code: S; COG: COG4680; hypothetical protein complement(3196233..3196547) Shigella flexneri 5 str. 8401 4207555 YP_690486.1 CDS ygjO NC_008258.1 3196832 3198277 R Code: J; COG: COG2813; hypothetical protein complement(3196832..3198277) Shigella flexneri 5 str. 8401 4207557 YP_690487.1 CDS SFV_3125 NC_008258.1 3198257 3198556 D hypothetical protein 3198257..3198556 Shigella flexneri 5 str. 8401 4207556 YP_690488.1 CDS ygjQ NC_008258.1 3198633 3199325 D Code: S; COG: COG2949; hypothetical protein 3198633..3199325 Shigella flexneri 5 str. 8401 4207558 YP_690489.1 CDS ygjR NC_008258.1 3199404 3200402 D Code: R; COG: COG0673; hypothetical protein 3199404..3200402 Shigella flexneri 5 str. 8401 4207559 YP_690490.1 CDS ygjT NC_008258.1 3200673 3201638 D Code: P; COG: COG0861; transport protein 3200673..3201638 Shigella flexneri 5 str. 8401 4207560 YP_690491.1 CDS ygjU NC_008258.1 3202234 3203478 D involved in the import of serine and threonine coupled with the import of sodium; serine/threonine transporter SstT 3202234..3203478 Shigella flexneri 5 str. 8401 4207561 YP_690492.1 CDS ygjV NC_008258.1 3203483 3204034 R hypothetical protein complement(3203483..3204034) Shigella flexneri 5 str. 8401 4207562 YP_690493.1 CDS uxaA NC_008258.1 3204117 3205604 R Code: G; COG: COG2721; altronate hydrolase complement(3204117..3205604) Shigella flexneri 5 str. 8401 4207563 YP_690494.1 CDS uxaC NC_008258.1 3205619 3207031 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(3205619..3207031) Shigella flexneri 5 str. 8401 4207564 YP_690495.1 CDS exuT NC_008258.1 3207347 3208813 D Code: GEPR; COG: COG0477; transport protein of hexuronates 3207347..3208813 Shigella flexneri 5 str. 8401 4207565 YP_690496.1 CDS SFV_3135 NC_008258.1 3208901 3209989 R hypothetical protein complement(3208901..3209989) Shigella flexneri 5 str. 8401 4208914 YP_690497.1 CDS tsaC NC_008258.1 3209986 3212835 R outer membrane fimbrial user protein complement(3209986..3212835) Shigella flexneri 5 str. 8401 4208915 YP_690498.1 CDS insB NC_008258.1 3212949 3213452 D Code: L; COG: COG1662; IS1 ORF2 3212949..3213452 Shigella flexneri 5 str. 8401 4208916 YP_690499.1 CDS exuR NC_008258.1 3213560 3214336 D regulates the exuT, uxaCA and uxuRAB operons which encode genes involved in hexuronate utilization.; DNA-binding transcriptional repressor ExuR 3213560..3214336 Shigella flexneri 5 str. 8401 4208917 YP_690500.1 CDS yqjA NC_008258.1 3214681 3215343 D Code: S; COG: COG0586; hypothetical protein 3214681..3215343 Shigella flexneri 5 str. 8401 4208918 YP_690501.1 CDS yqjB NC_008258.1 3215347 3215730 D hypothetical protein 3215347..3215730 Shigella flexneri 5 str. 8401 4208919 YP_690502.1 CDS yqjC NC_008258.1 3215877 3216311 D hypothetical protein 3215877..3216311 Shigella flexneri 5 str. 8401 4208920 YP_690503.1 CDS yqjD NC_008258.1 3216269 3216574 D Code: S; COG: COG4575; hypothetical protein 3216269..3216574 Shigella flexneri 5 str. 8401 4208921 YP_690504.1 CDS yqjE NC_008258.1 3216577 3216981 D Code: S; COG: COG5393; hypothetical protein 3216577..3216981 Shigella flexneri 5 str. 8401 4208922 YP_690505.1 CDS SFV_3144 NC_008258.1 3216971 3217270 D hypothetical protein 3216971..3217270 Shigella flexneri 5 str. 8401 4208923 YP_690506.1 CDS yqjF NC_008258.1 3217366 3217752 D Code: S; COG: COG2259; hypothetical protein 3217366..3217752 Shigella flexneri 5 str. 8401 4208924 YP_690507.1 CDS yqjG NC_008258.1 3217822 3218808 D Code: O; COG: COG0435; transferase 3217822..3218808 Shigella flexneri 5 str. 8401 4208925 YP_690508.1 CDS yhaH NC_008258.1 3219080 3219469 D Code: S; COG: COG3152; cytochrome 3219080..3219469 Shigella flexneri 5 str. 8401 4208926 YP_690509.1 CDS yhaJ NC_008258.1 3219676 3220572 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(3219676..3220572) Shigella flexneri 5 str. 8401 4208927 YP_690510.1 CDS yhaK NC_008258.1 3220677 3221378 D Code: R; COG: COG1741; hypothetical protein 3220677..3221378 Shigella flexneri 5 str. 8401 4208928 YP_690511.1 CDS yhaL NC_008258.1 3221401 3221565 D hypothetical protein 3221401..3221565 Shigella flexneri 5 str. 8401 4208929 YP_690512.1 CDS yhaNM NC_008258.1 3221777 3223087 R Code: S; COG: COG3681; hypothetical protein complement(3221777..3223087) Shigella flexneri 5 str. 8401 4208930 YP_690513.1 CDS yhaO NC_008258.1 3223115 3224383 R Code: E; COG: COG0814; transport system permease complement(3223115..3224383) Shigella flexneri 5 str. 8401 4208931 YP_690514.1 CDS yhaP NC_008258.1 3224721 3226085 R Code: E; COG: COG1760; L-serine deaminase complement(3224721..3226085) Shigella flexneri 5 str. 8401 4208932 YP_690515.1 CDS yhaR NC_008258.1 3226157 3226609 R Code: J; COG: COG0251; hypothetical protein complement(3226157..3226609) Shigella flexneri 5 str. 8401 4208933 YP_690516.1 CDS tdcE NC_008258.1 3226560 3228854 R Code: C; COG: COG1882; formate acetyltransferase 3 complement(3226560..3228854) Shigella flexneri 5 str. 8401 4207342 YP_690517.2 CDS tdcD NC_008258.1 3228888 3230108 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(3228888..3230108) Shigella flexneri 5 str. 8401 4207343 YP_690518.1 CDS tdcC NC_008258.1 3230122 3231453 R involved in the import of threonine and serine in combination with the import of a proton; threonine/serine transporter TdcC complement(3230122..3231453) Shigella flexneri 5 str. 8401 4207344 YP_690519.1 CDS tdcB NC_008258.1 3231475 3232464 R catalyzes the formation of 2-oxobutanoate from L-threonine; catabolic; threonine dehydratase complement(3231475..3232464) Shigella flexneri 5 str. 8401 4207345 YP_690520.1 CDS tdcA NC_008258.1 3232563 3233501 R regulates the tdcABCDEFG operon which is involved in amino acid degradation; DNA-binding transcriptional activator TdcA complement(3232563..3233501) Shigella flexneri 5 str. 8401 4207346 YP_690521.1 CDS tdcR NC_008258.1 3233691 3234035 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 3233691..3234035 Shigella flexneri 5 str. 8401 4207347 YP_690522.1 CDS yhaB NC_008258.1 3234291 3234830 D hypothetical protein 3234291..3234830 Shigella flexneri 5 str. 8401 4207348 YP_690523.1 CDS yhaC NC_008258.1 3234852 3235568 D hypothetical protein 3234852..3235568 Shigella flexneri 5 str. 8401 4207349 YP_690524.1 CDS SFV_3163 NC_008258.1 3236641 3237030 D hypothetical protein 3236641..3237030 Shigella flexneri 5 str. 8401 4207350 YP_690525.1 CDS yhaD NC_008258.1 3237049 3238275 R Code: G; COG: COG1929; glycerate kinase I complement(3237049..3238275) Shigella flexneri 5 str. 8401 4207351 YP_690526.1 CDS garR NC_008258.1 3238291 3239175 R catalyzes the reduction of tartronate semialdehyde to glycerate; tartronate semialdehyde reductase complement(3238291..3239175) Shigella flexneri 5 str. 8401 4207352 YP_690527.1 CDS yhaF NC_008258.1 3239211 3239756 R Code: G; COG: COG3836; hypothetical protein complement(3239211..3239756) Shigella flexneri 5 str. 8401 4207353 YP_690528.1 CDS yhaU NC_008258.1 3239997 3241283 R Code: GEPR; COG: COG0477; transport protein complement(3239997..3241283) Shigella flexneri 5 str. 8401 4207354 YP_690529.1 CDS insB NC_008258.1 3241285 3241788 R Code: L; COG: COG1662; IS1 ORF2 complement(3241285..3241788) Shigella flexneri 5 str. 8401 4207355 YP_690530.1 CDS SFV_3169 NC_008258.1 3241863 3242042 D IS1 encoded protein 3241863..3242042 Shigella flexneri 5 str. 8401 4207356 YP_690531.1 CDS yraI NC_008258.1 3242618 3243313 D Code: NU; COG: COG3121; chaperone 3242618..3243313 Shigella flexneri 5 str. 8401 4207358 YP_690532.1 CDS SFV_3173 NC_008258.1 3245078 3245917 R Code: L; COG: COG2801; IS2 ORF2 complement(3245078..3245917) Shigella flexneri 5 str. 8401 4207360 YP_690533.1 CDS SFV_3174 NC_008258.1 3245941 3246306 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(3245941..3246306) Shigella flexneri 5 str. 8401 4209727 YP_690534.1 CDS yraK NC_008258.1 3247205 3248296 D Code: NU; COG: COG3539; fimbrial protein 3247205..3248296 Shigella flexneri 5 str. 8401 4209728 YP_690535.1 CDS yraL NC_008258.1 3248339 3249199 R Code: R; COG: COG0313; hypothetical protein complement(3248339..3249199) Shigella flexneri 5 str. 8401 4209729 YP_690536.1 CDS yraM NC_008258.1 3249234 3251300 D Code: R; COG: COG3107; glycosylase 3249234..3251300 Shigella flexneri 5 str. 8401 4209730 YP_690537.1 CDS yraN NC_008258.1 3251258 3251653 D Code: L; COG: COG0792; hypothetical protein 3251258..3251653 Shigella flexneri 5 str. 8401 4209731 YP_690538.1 CDS yraO NC_008258.1 3251673 3252263 D Required for the timely initiation of chromosomal replication via direct interactions with the dnaA initiator protein; chromosome replication initiator DnaA 3251673..3252263 Shigella flexneri 5 str. 8401 4209732 YP_690539.1 CDS yraP NC_008258.1 3252273 3252848 D Code: R; COG: COG2823; hypothetical protein 3252273..3252848 Shigella flexneri 5 str. 8401 4209733 YP_690540.1 CDS yraQ NC_008258.1 3252962 3254002 R Code: R; COG: COG0701; hypothetical protein complement(3252962..3254002) Shigella flexneri 5 str. 8401 4209734 YP_690541.1 CDS yraR NC_008258.1 3254075 3254710 R Code: MG; COG: COG0702; hypothetical protein complement(3254075..3254710) Shigella flexneri 5 str. 8401 4209735 YP_690542.1 CDS yhbO NC_008258.1 3254838 3255356 D Code: R; COG: COG0693; hypothetical protein 3254838..3255356 Shigella flexneri 5 str. 8401 4209736 YP_690543.1 CDS yhbP NC_008258.1 3255336 3255779 R Code: S; COG: COG3787; hypothetical protein complement(3255336..3255779) Shigella flexneri 5 str. 8401 4209737 YP_690544.1 CDS yhbQ NC_008258.1 3255821 3256132 D Code: L; COG: COG2827; GIY-YIG nuclease superfamily protein 3255821..3256132 Shigella flexneri 5 str. 8401 4209738 YP_690545.1 CDS yhbS NC_008258.1 3256119 3256622 R Code: R; COG: COG3153; hypothetical protein complement(3256119..3256622) Shigella flexneri 5 str. 8401 4209739 YP_690546.1 CDS yhbT NC_008258.1 3256616 3257140 R Code: I; COG: COG3154; hypothetical protein complement(3256616..3257140) Shigella flexneri 5 str. 8401 4209740 YP_690547.1 CDS yhbU NC_008258.1 3257349 3258344 D Code: O; COG: COG0826; collagenase 3257349..3258344 Shigella flexneri 5 str. 8401 4209741 YP_690548.1 CDS yhbV NC_008258.1 3258353 3259198 D Code: O; COG: COG0826; hypothetical protein 3258353..3259198 Shigella flexneri 5 str. 8401 4209742 YP_690549.1 CDS yhbW NC_008258.1 3259312 3260319 D Code: C; COG: COG2141; hypothetical protein 3259312..3260319 Shigella flexneri 5 str. 8401 4209743 YP_690550.1 CDS mtr NC_008258.1 3260437 3261681 R tryptophan transporter of high affinity; tryptophan permease complement(3260437..3261681) Shigella flexneri 5 str. 8401 4209744 YP_690551.1 CDS deaD NC_008258.1 3261835 3263790 R 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 complement(3261835..3263790) Shigella flexneri 5 str. 8401 4209745 YP_690552.1 CDS yhbM NC_008258.1 3263904 3264788 R lipoprotein that appears to be involved in cell division; interacts with the periplasmic protease Prc and may be activated by protease processing; lipoprotein NlpI complement(3263904..3264788) Shigella flexneri 5 str. 8401 4209746 YP_690553.1 CDS pnp NC_008258.1 3264897 3267032 R Code: J; COG: COG1185; polynucleotide phosphorylase complement(3264897..3267032) Shigella flexneri 5 str. 8401 4207684 YP_690554.1 CDS rpsO NC_008258.1 3267279 3267548 R 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 complement(3267279..3267548) Shigella flexneri 5 str. 8401 4207685 YP_690555.1 CDS truB NC_008258.1 3267697 3268641 R catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs; tRNA pseudouridine synthase B complement(3267697..3268641) Shigella flexneri 5 str. 8401 4207686 YP_690556.1 CDS rbfA NC_008258.1 3268641 3269042 R 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 complement(3268641..3269042) Shigella flexneri 5 str. 8401 4207687 YP_690557.1 CDS infB NC_008258.1 3269206 3271854 R 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 complement(3269206..3271854) Shigella flexneri 5 str. 8401 4207688 YP_690558.1 CDS nusA NC_008258.1 3271879 3273366 R modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination; transcription elongation factor NusA complement(3271879..3273366) Shigella flexneri 5 str. 8401 4207689 YP_690559.1 CDS yhbC NC_008258.1 3273394 3273846 R 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 complement(3273394..3273846) Shigella flexneri 5 str. 8401 4207690 YP_690560.1 CDS argG NC_008258.1 3274477 3275820 D catalyzes the formation of arginosuccinate from citrulline and aspartate in arginine biosynthesis; argininosuccinate synthase 3274477..3275820 Shigella flexneri 5 str. 8401 4207692 YP_690561.2 CDS secG NC_008258.1 3278014 3278346 R Code: U; COG: COG1314; preprotein translocase subunit SecG complement(3278014..3278346) Shigella flexneri 5 str. 8401 4207695 YP_690562.1 CDS glmM NC_008258.1 3278573 3279910 R catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate; phosphoglucosamine mutase complement(3278573..3279910) Shigella flexneri 5 str. 8401 4207696 YP_690563.1 CDS folP NC_008258.1 3279903 3280751 R catalyzes the formation of dihydropteroate from 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine diphosphate and 4-aminobenzoate; dihydropteroate synthase complement(3279903..3280751) Shigella flexneri 5 str. 8401 4207697 YP_690564.1 CDS hflB NC_008258.1 3280841 3282775 R inner membrane metalloprotease; may be involved in degradation of aberrant cytoplasmic and membrane proteins; ATP-dependent metalloprotease complement(3280841..3282775) Shigella flexneri 5 str. 8401 4207698 YP_690565.1 CDS rrmJ NC_008258.1 3282875 3283504 R Specifically methylates the uridine in position 2552 of 23S rRNA in the fully assembled 50S ribosomal subunit; 23S rRNA methyltransferase complement(3282875..3283504) Shigella flexneri 5 str. 8401 4207699 YP_690566.1 CDS yhbY NC_008258.1 3283630 3283923 D 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 3283630..3283923 Shigella flexneri 5 str. 8401 4207700 YP_690567.1 CDS greA NC_008258.1 3284079 3284555 R 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 complement(3284079..3284555) Shigella flexneri 5 str. 8401 4208342 YP_690568.1 CDS dacB NC_008258.1 3284803 3286236 D 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/endopeptidase 3284803..3286236 Shigella flexneri 5 str. 8401 4208343 YP_690569.1 CDS obgE NC_008258.1 3286422 3287594 R essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication; GTPase ObgE complement(3286422..3287594) Shigella flexneri 5 str. 8401 4208344 YP_690570.1 CDS yhbE NC_008258.1 3287610 3288575 R Code: GER; COG: COG0697; hypothetical protein complement(3287610..3288575) Shigella flexneri 5 str. 8401 4208345 YP_690571.1 CDS rpmA NC_008258.1 3288702 3288959 R involved in the peptidyltransferase reaction during translation; 50S ribosomal protein L27 complement(3288702..3288959) Shigella flexneri 5 str. 8401 4208346 YP_690572.1 CDS rplU NC_008258.1 3288980 3289291 R 50S ribosomal protein L21 complement(3288980..3289291) Shigella flexneri 5 str. 8401 4208347 YP_690573.1 CDS ispB NC_008258.1 3289549 3290520 D Code: H; COG: COG0142; octaprenyl diphosphate synthase 3289549..3290520 Shigella flexneri 5 str. 8401 4208348 YP_690574.1 CDS nlp NC_008258.1 3290747 3291025 D activator of maltose metabolism genes; DNA-binding transcriptional regulator Nlp 3290747..3291025 Shigella flexneri 5 str. 8401 4208349 YP_690575.1 CDS murA NC_008258.1 3291073 3292332 R 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 complement(3291073..3292332) Shigella flexneri 5 str. 8401 4208350 YP_690576.1 CDS yrbA NC_008258.1 3292387 3292656 R Code: K; COG: COG5007; hypothetical protein complement(3292387..3292656) Shigella flexneri 5 str. 8401 4208351 YP_690577.1 CDS yrbB NC_008258.1 3292801 3293190 R Code: R; COG: COG3113; hypothetical protein complement(3292801..3293190) Shigella flexneri 5 str. 8401 4208352 YP_690578.1 CDS yrbC NC_008258.1 3293094 3293729 R Code: Q; COG: COG2854; hypothetical protein complement(3293094..3293729) Shigella flexneri 5 str. 8401 4208353 YP_690579.1 CDS yrbD NC_008258.1 3293748 3294299 R Code: Q; COG: COG1463; cytoplasmic membrane protein complement(3293748..3294299) Shigella flexneri 5 str. 8401 4208354 YP_690580.1 CDS yrbE NC_008258.1 3294304 3295086 R Code: Q; COG: COG0767; hypothetical protein complement(3294304..3295086) Shigella flexneri 5 str. 8401 4208355 YP_690581.1 CDS yrbF NC_008258.1 3295094 3295903 R ATP-binding subunit of a ABC toluene efflux transporter; ABC transporter ATP-binding protein YrbF complement(3295094..3295903) Shigella flexneri 5 str. 8401 4208356 YP_690582.1 CDS yrbG NC_008258.1 3296113 3297078 D 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 3296113..3297078 Shigella flexneri 5 str. 8401 4208357 YP_690583.1 CDS yrbH NC_008258.1 3297071 3298078 D Code: M; COG: COG0794; D-arabinose 5-phosphate isomerase 3297071..3298078 Shigella flexneri 5 str. 8401 4208358 YP_690584.1 CDS yrbI NC_008258.1 3298099 3298665 D 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 3298099..3298665 Shigella flexneri 5 str. 8401 4208359 YP_690585.1 CDS yrbK NC_008258.1 3298662 3299237 D Code: S; COG: COG3117; hypothetical protein 3298662..3299237 Shigella flexneri 5 str. 8401 4208360 YP_690586.1 CDS yhbN NC_008258.1 3299185 3299763 D 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 3299185..3299763 Shigella flexneri 5 str. 8401 4208361 YP_690587.1 CDS yhbG NC_008258.1 3299770 3300495 D Code: R; COG: COG1137; ABC transporter ATP-binding protein YhbG 3299770..3300495 Shigella flexneri 5 str. 8401 4209269 YP_690588.1 CDS rpoN NC_008258.1 3300543 3301976 D 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 3300543..3301976 Shigella flexneri 5 str. 8401 4209270 YP_690589.1 CDS yhbH NC_008258.1 3301999 3302286 D YhbH; resting ribosome-binding protein involved in ribosome stabilization and preservation in stationary phase; binds specifically 100S ribosomes (an inactive ribosome product of a 70S ribosome dimerization); seems to be involved in modulation of the sigma(54) (RpoN) activity for quorum sensing; sigma(54) modulation protein 3301999..3302286 Shigella flexneri 5 str. 8401 4209271 YP_690590.1 CDS ptsN NC_008258.1 3302404 3302895 D Code: GT; COG: COG1762; PTS system transporter subunit IIA-like nitrogen-regulatory protein PtsN 3302404..3302895 Shigella flexneri 5 str. 8401 4209272 YP_690591.1 CDS yhbJ NC_008258.1 3302941 3303795 D Code: R; COG: COG1660; hypothetical protein 3302941..3303795 Shigella flexneri 5 str. 8401 4209273 YP_690592.1 CDS ptsO NC_008258.1 3303792 3304064 D Code: G; COG: COG1925; phosphohistidinoprotein-hexose phosphotransferase component of N-regulated PTS system (Npr) 3303792..3304064 Shigella flexneri 5 str. 8401 4209274 YP_690593.1 CDS yrbL NC_008258.1 3304277 3304771 D hypothetical protein 3304277..3304771 Shigella flexneri 5 str. 8401 4209275 YP_690594.1 CDS yhbL NC_008258.1 3305630 3306283 R Code: Q; COG: COG3155; isoprenoid biosynthesis protein with amidotransferase-like domain complement(3305630..3306283) Shigella flexneri 5 str. 8401 4209277 YP_690595.1 CDS arcB NC_008258.1 3306513 3308849 R 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 complement(3306513..3308849) Shigella flexneri 5 str. 8401 4209278 YP_690596.1 CDS yhcC NC_008258.1 3308945 3309850 R Code: R; COG: COG1242; hypothetical protein complement(3308945..3309850) Shigella flexneri 5 str. 8401 4209279 YP_690597.1 CDS gltB NC_008258.1 3310549 3315009 D catalyzes the formation of glutamate from glutamine and alpha-ketoglutarate; glutamate synthase subunit alpha 3310549..3315009 Shigella flexneri 5 str. 8401 4209280 YP_690598.1 CDS gltD NC_008258.1 3315022 3316440 D 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 3315022..3316440 Shigella flexneri 5 str. 8401 4209281 YP_690599.1 CDS SFV_3244 NC_008258.1 3317177 3317479 D Code: L; COG: COG2963; IS600 ORF1 3317177..3317479 Shigella flexneri 5 str. 8401 4209282 YP_690600.1 CDS SFV_3245 NC_008258.1 3317620 3318333 D Code: L; COG: COG2801; IS600 ORF2 3317620..3318333 Shigella flexneri 5 str. 8401 4209283 YP_690601.1 CDS yhcH NC_008258.1 3318767 3319231 R Code: G; COG: COG2731; hypothetical protein complement(3318767..3319231) Shigella flexneri 5 str. 8401 4209284 YP_690602.1 CDS yhcI NC_008258.1 3319228 3320103 R catalyzes the phosphorylation of the N-acetylmannosamine (ManNAc) liberated from N-acetyl-neuraminic acid by the nanA protein; N-acetylmannosamine kinase complement(3319228..3320103) Shigella flexneri 5 str. 8401 4209285 YP_690603.1 CDS yhcJ NC_008258.1 3320100 3320789 R Converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate; N-acetylmannosamine-6-phosphate 2-epimerase complement(3320100..3320789) Shigella flexneri 5 str. 8401 4209286 YP_690604.1 CDS nanT NC_008258.1 3320837 3322327 R Code: GEPR; COG: COG0477; sialic acid transporter complement(3320837..3322327) Shigella flexneri 5 str. 8401 4209287 YP_690605.1 CDS nanA NC_008258.1 3322437 3323330 R catalyzes the formation of pyruvate and N-acetylmannosamine from N-acetylneuraminic acid; N-acetylneuraminate lyase complement(3322437..3323330) Shigella flexneri 5 str. 8401 4207664 YP_690606.1 CDS yhcK NC_008258.1 3323452 3324234 R Transcriptional repressor of the nan operon that encodes proteins involved in sialic acid utilization; transcriptional regulator NanR complement(3323452..3324234) Shigella flexneri 5 str. 8401 4207665 YP_690607.1 CDS SFV_3252 NC_008258.1 3324513 3324800 R IS1 encoded protein complement(3324513..3324800) Shigella flexneri 5 str. 8401 4207666 YP_690608.1 CDS insB NC_008258.1 3324875 3325378 D Code: L; COG: COG1662; IS1 ORF2 3324875..3325378 Shigella flexneri 5 str. 8401 4207667 YP_690609.1 CDS yhcL NC_008258.1 3325504 3326766 D YhcL; uncharacterized member of the DcuC family of anaerobic dicarboxylate transporters; probable role in transport of carboxylates across the inner membrane from the periplasm; its encoding gene is not essential for growth and is probably cryptic; cryptic C4-dicarboxylate transporter DcuD 3325504..3326766 Shigella flexneri 5 str. 8401 4207668 YP_690610.1 CDS sspB NC_008258.1 3326809 3327306 R Code: R; COG: COG2969; ClpXP protease specificity-enhancing factor complement(3326809..3327306) Shigella flexneri 5 str. 8401 4207669 YP_690611.1 CDS sspA NC_008258.1 3327312 3327950 R transcriptional activator; required for activation of bacteriophage P1 late promoter; induced by starvation; stringent starvation protein A complement(3327312..3327950) Shigella flexneri 5 str. 8401 4207670 YP_690612.1 CDS rpsI NC_008258.1 3328345 3328737 R forms a direct contact with the tRNA during translation; 30S ribosomal protein S9 complement(3328345..3328737) Shigella flexneri 5 str. 8401 4207671 YP_690613.2 CDS rplM NC_008258.1 3328753 3329181 R in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit; 50S ribosomal protein L13 complement(3328753..3329181) Shigella flexneri 5 str. 8401 4207672 YP_690614.1 CDS yhcM NC_008258.1 3329400 3330527 R Code: R; COG: COG1485; hypothetical protein complement(3329400..3330527) Shigella flexneri 5 str. 8401 4207673 YP_690615.1 CDS yhcB NC_008258.1 3330721 3331119 D Code: S; COG: COG3105; cytochrome d ubiquinol oxidase subunit III 3330721..3331119 Shigella flexneri 5 str. 8401 4207674 YP_690616.1 CDS degQ NC_008258.1 3331273 3332640 D Code: O; COG: COG0265; serine endoprotease 3331273..3332640 Shigella flexneri 5 str. 8401 4207675 YP_690617.1 CDS degS NC_008258.1 3332730 3333797 D Code: O; COG: COG0265; serine endoprotease 3332730..3333797 Shigella flexneri 5 str. 8401 4207676 YP_690618.1 CDS mdh NC_008258.1 3333859 3334797 R oxidizes malate to oxaloacetate; malate dehydrogenase complement(3333859..3334797) Shigella flexneri 5 str. 8401 4207677 YP_690619.1 CDS argR NC_008258.1 3335232 3335702 D regulates arginine biosynthesis when complexed with arginine by binding at site that overlap the promotors of the arginine biosynthesis genes; arginine repressor ArgR 3335232..3335702 Shigella flexneri 5 str. 8401 4207678 YP_690620.1 CDS yhcN NC_008258.1 3336016 3336330 D hypothetical protein 3336016..3336330 Shigella flexneri 5 str. 8401 4207679 YP_690621.1 CDS yhcO NC_008258.1 3336386 3336658 R Code: K; COG: COG2732; hypothetical protein complement(3336386..3336658) Shigella flexneri 5 str. 8401 4207680 YP_690622.1 CDS yhcP NC_008258.1 3336750 3338717 R 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 complement(3336750..3338717) Shigella flexneri 5 str. 8401 4207681 YP_690623.1 CDS yhcQ NC_008258.1 3338723 3339655 R with AaeB forms an efflux pump whose substrates are p-hydroxybenzoic acid, 6-hydroxy-2-naphthoic and 2-hydroxycinnamate; p-hydroxybenzoic acid efflux subunit AaeA complement(3338723..3339655) Shigella flexneri 5 str. 8401 4207682 YP_690624.2 CDS yhcR NC_008258.1 3339663 3339866 R membrane protein AaeX; the gene is a member of the aaeXAB operon; hypothetical protein complement(3339663..3339866) Shigella flexneri 5 str. 8401 4207683 YP_690625.1 CDS qseA NC_008258.1 3340049 3340978 D Code: K; COG: COG0583; DNA-binding transcriptional regulator 3340049..3340978 Shigella flexneri 5 str. 8401 4210538 YP_690626.1 CDS tldD NC_008258.1 3341106 3342551 R 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 complement(3341106..3342551) Shigella flexneri 5 str. 8401 4210539 YP_690627.1 CDS yhdRP NC_008258.1 3342707 3346507 R Code: S; COG: COG3164; hypothetical protein complement(3342707..3346507) Shigella flexneri 5 str. 8401 4210540 YP_690628.1 CDS cafA NC_008258.1 3346575 3348044 R involved in the processing of the 5'end of 16S rRNA; ribonuclease G complement(3346575..3348044) Shigella flexneri 5 str. 8401 4210541 YP_690629.1 CDS yhdE NC_008258.1 3348034 3348627 R Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell; Maf-like protein complement(3348034..3348627) Shigella flexneri 5 str. 8401 4210542 YP_690630.1 CDS mreD NC_008258.1 3348636 3349124 R part of cell wall structural complex MreBCD; transmembrane component; rod shape-determining protein MreD complement(3348636..3349124) Shigella flexneri 5 str. 8401 4210543 YP_690631.1 CDS mreC NC_008258.1 3349124 3350209 R 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 complement(3349124..3350209) Shigella flexneri 5 str. 8401 4210544 YP_690632.2 CDS mreB NC_008258.1 3350275 3351318 R functions in MreBCD complex in some organisms; rod shape-determining protein MreB complement(3350275..3351318) Shigella flexneri 5 str. 8401 4210545 YP_690633.1 CDS yhdA NC_008258.1 3351623 3353563 R regulates the degradation of the small RNAs CsrB and CsrC; may function to targate RNase E to specific RNA molecules; regulatory protein CsrD complement(3351623..3353563) Shigella flexneri 5 str. 8401 4210546 YP_690634.1 CDS yhdH NC_008258.1 3353715 3354689 D Code: CR; COG: COG0604; dehydrogenase 3353715..3354689 Shigella flexneri 5 str. 8401 4210547 YP_690635.1 CDS accB NC_008258.1 3355667 3356137 D 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 3355667..3356137 Shigella flexneri 5 str. 8401 4210548 YP_690636.1 CDS accC NC_008258.1 3356148 3357497 D 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 3356148..3357497 Shigella flexneri 5 str. 8401 4210549 YP_690637.1 CDS yhdT NC_008258.1 3357606 3357848 D Code: S; COG: COG3924; hypothetical protein 3357606..3357848 Shigella flexneri 5 str. 8401 4210550 YP_690638.1 CDS panF NC_008258.1 3357838 3359289 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 3357838..3359289 Shigella flexneri 5 str. 8401 4210551 YP_690639.1 CDS prmA NC_008258.1 3359301 3360182 D methylates ribosomal protein L11 at multiple amino acid positions; mutations of these genes in Escherichia coli or Thermus thermophilus has no apparent phenotype; ribosomal protein L11 methyltransferase 3359301..3360182 Shigella flexneri 5 str. 8401 4210552 YP_690640.1 CDS yhdG NC_008258.1 3360511 3361476 D Code: J; COG: COG0042; tRNA-dihydrouridine synthase B 3360511..3361476 Shigella flexneri 5 str. 8401 4210553 YP_690641.1 CDS fis NC_008258.1 3361502 3361798 D Stimulates excision of phage lambda; affects Mu development; acts as an activator of rRNA and iRNA transcription; Fis family transcriptional regulator 3361502..3361798 Shigella flexneri 5 str. 8401 4210554 YP_690642.1 CDS yhdJ NC_008258.1 3361884 3362768 D Code: L; COG: COG0863; methyltransferase 3361884..3362768 Shigella flexneri 5 str. 8401 4210555 YP_690643.1 CDS insB NC_008258.1 3363046 3363549 R Code: L; COG: COG1662; IS1 ORF2 complement(3363046..3363549) Shigella flexneri 5 str. 8401 4210556 YP_690644.1 CDS SFV_3289 NC_008258.1 3363642 3363950 D IS1 encoded protein 3363642..3363950 Shigella flexneri 5 str. 8401 4211068 YP_690645.1 CDS yhdW NC_008258.1 3363979 3365004 D Code: ET; COG: COG0834; periplasmic binding transport protein 3363979..3365004 Shigella flexneri 5 str. 8401 4211069 YP_690646.1 CDS yhdY NC_008258.1 3366252 3367355 D Code: E; COG: COG0765; transport system permease 3366252..3367355 Shigella flexneri 5 str. 8401 4211071 YP_690647.1 CDS yhdZ NC_008258.1 3367363 3368121 D Code: E; COG: COG1126; ABC transporter ATP-binding protein 3367363..3368121 Shigella flexneri 5 str. 8401 4211072 YP_690648.1 CDS yrdA NC_008258.1 3373615 3374463 D Code: R; COG: COG0663; transferase 3373615..3374463 Shigella flexneri 5 str. 8401 4211079 YP_690649.1 CDS yrdB NC_008258.1 3374439 3374696 R hypothetical protein complement(3374439..3374696) Shigella flexneri 5 str. 8401 4211080 YP_690650.1 CDS aroE NC_008258.1 3374693 3375511 R AroE; catalyzes the conversion of shikimate to 3-dehydroshikimate; shikimate 5-dehydrogenase complement(3374693..3375511) Shigella flexneri 5 str. 8401 4211081 YP_690651.1 CDS yrdC NC_008258.1 3375516 3376133 R RimN; YrdC; required for maturation of 16s RNA; binds preferentially double stranded RNA; ribosome maturation factor complement(3375516..3376133) Shigella flexneri 5 str. 8401 4211011 YP_690652.1 CDS smg NC_008258.1 3376664 3377137 R Code: S; COG: COG2922; hypothetical protein complement(3376664..3377137) Shigella flexneri 5 str. 8401 4211012 YP_690653.1 CDS smf NC_008258.1 3377109 3378233 R Code: LU; COG: COG0758; DNA protecting protein DprA complement(3377109..3378233) Shigella flexneri 5 str. 8401 4211013 YP_690654.1 CDS def NC_008258.1 3378398 3378907 D cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+); peptide deformylase 3378398..3378907 Shigella flexneri 5 str. 8401 4211014 YP_690655.1 CDS fmt NC_008258.1 3378922 3379869 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 3378922..3379869 Shigella flexneri 5 str. 8401 4211015 YP_690656.1 CDS sun NC_008258.1 3379894 3381204 D catalyzes the methylation of cytosine at position 967 (m5C967) of 16S rRNA; SAM-dependent methyltransferase; 16S rRNA methyltransferase GidB 3379894..3381204 Shigella flexneri 5 str. 8401 4211016 YP_690657.1 CDS trkA NC_008258.1 3381226 3382602 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 component 3381226..3382602 Shigella flexneri 5 str. 8401 4211017 YP_690658.1 CDS SFV_3310 NC_008258.1 3382783 3383457 D ISSfl4 ORF1 3382783..3383457 Shigella flexneri 5 str. 8401 4211018 YP_690659.1 CDS SFV_3311 NC_008258.1 3383454 3383801 D Code: L; COG: COG3436; ISSfl4 ORF2 3383454..3383801 Shigella flexneri 5 str. 8401 4211019 YP_690660.1 CDS SFV_3312 NC_008258.1 3383821 3385422 D Code: L; COG: COG3436; ISSfl4 ORF3 3383821..3385422 Shigella flexneri 5 str. 8401 4211020 YP_690661.1 CDS SFV_3313 NC_008258.1 3385426 3385713 R Code: L; COG: COG4584; ISSfl4 ORF1 complement(3385426..3385713) Shigella flexneri 5 str. 8401 4211021 YP_690662.1 CDS rplQ NC_008258.1 3385883 3386266 R is a component of the macrolide binding site in the peptidyl transferase center; 50S ribosomal protein L17 complement(3385883..3386266) Shigella flexneri 5 str. 8401 4211022 YP_690663.1 CDS rpoA NC_008258.1 3386307 3387296 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(3386307..3387296) Shigella flexneri 5 str. 8401 4211023 YP_690664.1 CDS rpsD NC_008258.1 3387322 3387942 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(3387322..3387942) Shigella flexneri 5 str. 8401 4211024 YP_690665.1 CDS rpsK NC_008258.1 3387976 3388365 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(3387976..3388365) Shigella flexneri 5 str. 8401 4211025 YP_690666.1 CDS rpsM NC_008258.1 3388382 3388738 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(3388382..3388738) Shigella flexneri 5 str. 8401 4211026 YP_690667.1 CDS rpmJ NC_008258.1 3388885 3389001 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(3388885..3389001) Shigella flexneri 5 str. 8401 4211027 YP_690668.1 CDS secY NC_008258.1 3389033 3390364 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(3389033..3390364) Shigella flexneri 5 str. 8401 4211028 YP_690669.1 CDS rplO NC_008258.1 3390372 3390806 R late assembly protein; 50S ribosomal protein L15 complement(3390372..3390806) Shigella flexneri 5 str. 8401 4211029 YP_690670.1 CDS rpmD NC_008258.1 3390810 3390989 R L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7; 50S ribosomal protein L30 complement(3390810..3390989) Shigella flexneri 5 str. 8401 4210557 YP_690671.1 CDS rpsE NC_008258.1 3390993 3391496 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(3390993..3391496) Shigella flexneri 5 str. 8401 4210558 YP_690672.1 CDS rplR NC_008258.1 3391511 3391864 R binds 5S rRNA along with protein L5 and L25; 50S ribosomal protein L18 complement(3391511..3391864) Shigella flexneri 5 str. 8401 4210559 YP_690673.1 CDS rplF NC_008258.1 3391874 3392407 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(3391874..3392407) Shigella flexneri 5 str. 8401 4210560 YP_690674.1 CDS rpsH NC_008258.1 3392420 3392812 R binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit; 30S ribosomal protein S8 complement(3392420..3392812) Shigella flexneri 5 str. 8401 4210561 YP_690675.1 CDS rpsN NC_008258.1 3392846 3393151 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(3392846..3393151) Shigella flexneri 5 str. 8401 4210562 YP_690676.1 CDS rplE NC_008258.1 3393166 3393705 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(3393166..3393705) Shigella flexneri 5 str. 8401 4210563 YP_690677.1 CDS rplX NC_008258.1 3393720 3394034 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(3393720..3394034) Shigella flexneri 5 str. 8401 4210564 YP_690678.1 CDS rplN NC_008258.1 3394045 3394416 R binds to the 23S rRNA between the centers for peptidyl transferase and GTPase; 50S ribosomal protein L14 complement(3394045..3394416) Shigella flexneri 5 str. 8401 4210565 YP_690679.1 CDS rpsQ NC_008258.1 3394581 3394835 R primary binding protein; helps mediate assembly; involved in translation fidelity; 30S ribosomal protein S17 complement(3394581..3394835) Shigella flexneri 5 str. 8401 4210566 YP_690680.1 CDS rpmC NC_008258.1 3394835 3395026 R one of the stabilizing components for the large ribosomal subunit; 50S ribosomal protein L29 complement(3394835..3395026) Shigella flexneri 5 str. 8401 4210567 YP_690681.1 CDS rplP NC_008258.1 3395026 3395436 R located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e; 50S ribosomal protein L16 complement(3395026..3395436) Shigella flexneri 5 str. 8401 4210568 YP_690682.1 CDS rpsC NC_008258.1 3395449 3396150 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(3395449..3396150) Shigella flexneri 5 str. 8401 4210569 YP_690683.1 CDS rplV NC_008258.1 3396168 3396500 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(3396168..3396500) Shigella flexneri 5 str. 8401 4210570 YP_690684.1 CDS rplB NC_008258.1 3396810 3397631 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(3396810..3397631) Shigella flexneri 5 str. 8401 4210571 YP_690685.1 CDS rplW NC_008258.1 3397649 3397951 R binds third domain of 23S rRNA and protein L29; part of exit tunnel; 50S ribosomal protein L23 complement(3397649..3397951) Shigella flexneri 5 str. 8401 4210572 YP_690686.1 CDS rplD NC_008258.1 3397948 3398553 R 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(3397948..3398553) Shigella flexneri 5 str. 8401 4210573 YP_690687.1 CDS rplC NC_008258.1 3398564 3399193 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(3398564..3399193) Shigella flexneri 5 str. 8401 4210574 YP_690688.1 CDS rpsJ NC_008258.1 3399226 3399537 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(3399226..3399537) Shigella flexneri 5 str. 8401 4210575 YP_690689.1 CDS hopD NC_008258.1 3399916 3400383 D Code: NOU; COG: COG1989; leader peptidase 3399916..3400383 Shigella flexneri 5 str. 8401 4210576 YP_690690.1 CDS bfr NC_008258.1 3400380 3400856 R iron storage protein; bacterioferritin complement(3400380..3400856) Shigella flexneri 5 str. 8401 4211049 YP_690691.1 CDS yheA NC_008258.1 3400929 3401123 R Code: P; COG: COG2906; bacterioferritin-associated ferredoxin complement(3400929..3401123) Shigella flexneri 5 str. 8401 4211050 YP_690692.1 CDS tufA NC_008258.1 3401306 3402490 R 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(3401306..3402490) Shigella flexneri 5 str. 8401 4211051 YP_690693.1 CDS fusA NC_008258.1 3402561 3404675 R EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene; elongation factor G complement(3402561..3404675) Shigella flexneri 5 str. 8401 4211052 YP_690694.1 CDS rpsG NC_008258.1 3404703 3405242 R binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit; 30S ribosomal protein S7 complement(3404703..3405242) Shigella flexneri 5 str. 8401 4211053 YP_690695.1 CDS rpsL NC_008258.1 3405339 3405713 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(3405339..3405713) Shigella flexneri 5 str. 8401 4211054 YP_690696.1 CDS yheL NC_008258.1 3405839 3406126 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 TusB complement(3405839..3406126) Shigella flexneri 5 str. 8401 4211055 YP_690697.1 CDS yheM NC_008258.1 3406134 3406493 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(3406134..3406493) Shigella flexneri 5 str. 8401 4211056 YP_690698.1 CDS yheN NC_008258.1 3406493 3406879 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(3406493..3406879) Shigella flexneri 5 str. 8401 4211057 YP_690699.1 CDS yheO NC_008258.1 3406879 3407601 R Code: S; COG: COG2964; hypothetical protein complement(3406879..3407601) Shigella flexneri 5 str. 8401 4211058 YP_690700.1 CDS fkpA NC_008258.1 3407768 3408580 R rotamase; FKBP-type peptidylprolyl isomerase complement(3407768..3408580) Shigella flexneri 5 str. 8401 4211059 YP_690701.1 CDS slyX NC_008258.1 3408801 3409019 D Code: S; COG: COG2900; hypothetical protein 3408801..3409019 Shigella flexneri 5 str. 8401 4211060 YP_690702.1 CDS slyD NC_008258.1 3409068 3409658 R rotamase; FKBP-type peptidylprolyl isomerase complement(3409068..3409658) Shigella flexneri 5 str. 8401 4211061 YP_690703.1 CDS SFV_3355 NC_008258.1 3409753 3409953 R Code: R; COG: COG3529; hypothetical protein complement(3409753..3409953) Shigella flexneri 5 str. 8401 4211062 YP_690704.1 CDS kefB NC_008258.1 3409963 3411675 R involved in potassium efflux; glutathione-regulated potassium-efflux system protein KefB complement(3409963..3411675) Shigella flexneri 5 str. 8401 4211063 YP_690705.1 CDS yheR NC_008258.1 3411739 3412290 R required for KefB activity; glutathione-regulated potassium-efflux system ancillary protein KefG complement(3411739..3412290) Shigella flexneri 5 str. 8401 4211064 YP_690706.1 CDS yheS NC_008258.1 3412421 3414334 D Code: R; COG: COG0488; ABC transporter ATP-binding protein 3412421..3414334 Shigella flexneri 5 str. 8401 4211065 YP_690707.1 CDS yheT NC_008258.1 3414334 3415383 D Code: R; COG: COG0429; hydrolase 3414334..3415383 Shigella flexneri 5 str. 8401 4211066 YP_690708.1 CDS yheU NC_008258.1 3415350 3415568 D Code: S; COG: COG3089; hypothetical protein 3415350..3415568 Shigella flexneri 5 str. 8401 4211067 YP_690709.1 CDS prkB NC_008258.1 3415622 3416491 D Code: C; COG: COG3954; phosphoribulokinase 3415622..3416491 Shigella flexneri 5 str. 8401 4206780 YP_690710.1 CDS yhfA NC_008258.1 3416546 3416950 R Code: O; COG: COG1765; hypothetical protein complement(3416546..3416950) Shigella flexneri 5 str. 8401 4206781 YP_690711.1 CDS crp NC_008258.1 3417252 3417884 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 3417252..3417884 Shigella flexneri 5 str. 8401 4206782 YP_690712.1 CDS yhfK NC_008258.1 3417935 3420025 D Code: S; COG: COG1289; hypothetical protein 3417935..3420025 Shigella flexneri 5 str. 8401 4206783 YP_690713.1 CDS argD NC_008258.1 3420092 3421312 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(3420092..3421312) Shigella flexneri 5 str. 8401 4206784 YP_690714.1 CDS pabA NC_008258.1 3421398 3421961 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(3421398..3421961) Shigella flexneri 5 str. 8401 4206785 YP_690715.1 CDS fic NC_008258.1 3421993 3422595 R Code: D; COG: COG2184; cell filamentation protein Fic complement(3421993..3422595) Shigella flexneri 5 str. 8401 4206786 YP_690716.1 CDS yhfG NC_008258.1 3422585 3422752 R hypothetical protein complement(3422585..3422752) Shigella flexneri 5 str. 8401 4206787 YP_690717.1 CDS ppiA NC_008258.1 3422857 3423438 R Code: O; COG: COG0652; peptidyl-prolyl cis-trans isomerase A complement(3422857..3423438) Shigella flexneri 5 str. 8401 4206788 YP_690718.1 CDS yhfC NC_008258.1 3423709 3424890 D Code: GEPR; COG: COG0477; hypothetical protein 3423709..3424890 Shigella flexneri 5 str. 8401 4206789 YP_690719.1 CDS nirB NC_008258.1 3425152 3427695 D Code: C; COG: COG1251; nitrite reductase (NAD(P)H) subunit 3425152..3427695 Shigella flexneri 5 str. 8401 4206790 YP_690720.1 CDS nirD NC_008258.1 3427692 3428018 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 3427692..3428018 Shigella flexneri 5 str. 8401 4206791 YP_690721.1 CDS nirC NC_008258.1 3428144 3428950 D member of the FNT family of formate and nitrite transporters; nitrite transporter NirC 3428144..3428950 Shigella flexneri 5 str. 8401 4206792 YP_690722.1 CDS cysG NC_008258.1 3428969 3430342 D 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 3428969..3430342 Shigella flexneri 5 str. 8401 4206793 YP_690723.1 CDS yhfL NC_008258.1 3430589 3430756 D hypothetical protein 3430589..3430756 Shigella flexneri 5 str. 8401 4206794 YP_690724.1 CDS frlB NC_008258.1 3432388 3433431 D catalyzes the conversion of fructoselysine 6-phosphate to glucose 6-phosphate and lysine; fructoselysine-6-P-deglycase 3432388..3433431 Shigella flexneri 5 str. 8401 4206796 YP_690725.1 CDS yhfP NC_008258.1 3433481 3434311 D YhfOP; YhfP; YhfO; FrlC; catalyzes the interconversion of fructoselysine and psicoselysine; fructoselysine 3-epimerase 3433481..3434311 Shigella flexneri 5 str. 8401 4206797 YP_690726.1 CDS yhfQ NC_008258.1 3434308 3435093 D Code: G; COG: COG0524; fructoselysine 6-kinase 3434308..3435093 Shigella flexneri 5 str. 8401 4206798 YP_690727.1 CDS yhfR NC_008258.1 3435127 3435924 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 3435127..3435924 Shigella flexneri 5 str. 8401 4206799 YP_690728.1 CDS yhfS NC_008258.1 3436084 3437169 R hypothetical protein complement(3436084..3437169) Shigella flexneri 5 str. 8401 4208186 YP_690729.1 CDS yhfT NC_008258.1 3437181 3438485 R transport system permease complement(3437181..3438485) Shigella flexneri 5 str. 8401 4208187 YP_690730.1 CDS yhfU NC_008258.1 3438497 3438889 R hypothetical protein complement(3438497..3438889) Shigella flexneri 5 str. 8401 4208188 YP_690731.1 CDS yhfV NC_008258.1 3438861 3439739 R phosphotriesterase homology protein; PhP; YhfV; member of a family of proteins related to phosphotriesterase (PTE); hydrolase complement(3438861..3439739) Shigella flexneri 5 str. 8401 4208189 YP_690732.1 CDS yhfW NC_008258.1 3439736 3440962 R Code: G; COG: COG1015; mutase complement(3439736..3440962) Shigella flexneri 5 str. 8401 4208190 YP_690733.1 CDS yhfX NC_008258.1 3440963 3442126 R Code: E; COG: COG3457; hypothetical protein complement(3440963..3442126) Shigella flexneri 5 str. 8401 4208191 YP_690734.1 CDS yhfY NC_008258.1 3442210 3442614 R hypothetical protein complement(3442210..3442614) Shigella flexneri 5 str. 8401 4208192 YP_690735.1 CDS yhfZ NC_008258.1 3442589 3443437 R hypothetical protein complement(3442589..3443437) Shigella flexneri 5 str. 8401 4208193 YP_690736.1 CDS trpS NC_008258.1 3443764 3444768 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(3443764..3444768) Shigella flexneri 5 str. 8401 4208194 YP_690737.1 CDS gph NC_008258.1 3444761 3445519 R catalyzes the dephosphorylation of 2-phosphoglycolate to form glycolate and phosphate; phosphoglycolate phosphatase complement(3444761..3445519) Shigella flexneri 5 str. 8401 4208195 YP_690738.1 CDS rpe NC_008258.1 3445512 3446189 R catalyzes the interconversion of D-ribulose 5-phosphate to xylulose 5-phosphate; ribulose-phosphate 3-epimerase complement(3445512..3446189) Shigella flexneri 5 str. 8401 4208196 YP_690739.1 CDS dam NC_008258.1 3446207 3447043 R Code: L; COG: COG0338; DNA adenine methylase complement(3446207..3447043) Shigella flexneri 5 str. 8401 4208197 YP_690740.1 CDS damX NC_008258.1 3447150 3448436 R Code: S; COG: COG3266; hypothetical protein complement(3447150..3448436) Shigella flexneri 5 str. 8401 4208198 YP_690741.1 CDS aroB NC_008258.1 3448528 3449616 R catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis; 3-dehydroquinate synthase complement(3448528..3449616) Shigella flexneri 5 str. 8401 4208199 YP_690742.2 CDS aroK NC_008258.1 3449673 3450194 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(3449673..3450194) Shigella flexneri 5 str. 8401 4208200 YP_690743.2 CDS hofQ NC_008258.1 3450595 3451833 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; porin complement(3450595..3451833) Shigella flexneri 5 str. 8401 4208201 YP_690744.1 CDS yrfA NC_008258.1 3451745 3452149 R hypothetical protein complement(3451745..3452149) Shigella flexneri 5 str. 8401 4208202 YP_690745.1 CDS yrfB NC_008258.1 3452139 3452579 R hypothetical protein complement(3452139..3452579) Shigella flexneri 5 str. 8401 4208203 YP_690746.1 CDS yrfC NC_008258.1 3452563 3453102 R Code: NU; COG: COG3166; hypothetical protein complement(3452563..3453102) Shigella flexneri 5 str. 8401 4208204 YP_690747.1 CDS yrfD NC_008258.1 3453102 3453881 R hypothetical protein complement(3453102..3453881) Shigella flexneri 5 str. 8401 4207720 YP_690748.1 CDS mrcA NC_008258.1 3454001 3456553 D 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 3454001..3456553 Shigella flexneri 5 str. 8401 4207721 YP_690749.1 CDS nudE NC_008258.1 3456718 3457278 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(3456718..3457278) Shigella flexneri 5 str. 8401 4207722 YP_690750.1 CDS yrfF NC_008258.1 3457598 3459733 D dehydrogenase 3457598..3459733 Shigella flexneri 5 str. 8401 4207723 YP_690751.1 CDS yrfG NC_008258.1 3459798 3460499 D Code: R; COG: COG1011; phosphatase 3459798..3460499 Shigella flexneri 5 str. 8401 4207724 YP_690752.1 CDS yrfH NC_008258.1 3460477 3460878 D Code: J; COG: COG1188; ribosome-associated heat shock protein Hsp15 3460477..3460878 Shigella flexneri 5 str. 8401 4207725 YP_690753.1 CDS hslO NC_008258.1 3460903 3461772 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; heat shock protein 33 3460903..3461772 Shigella flexneri 5 str. 8401 4207726 YP_690754.1 CDS yhgE NC_008258.1 3461916 3463601 R transport protein complement(3461916..3463601) Shigella flexneri 5 str. 8401 4207727 YP_690755.1 CDS pckA NC_008258.1 3464019 3465641 D PEP carboxykinase; PEP carboxylase; PEPCK; catalyzes the phosphorylation and decarboxylation of oxaloacetate to form phosphoenolpyruvate using ATP; phosphoenolpyruvate carboxykinase 3464019..3465641 Shigella flexneri 5 str. 8401 4207728 YP_690756.1 CDS envZ NC_008258.1 3465717 3467069 R membrane-localized osmosensor; histidine kinase; in high osmolarity EnvZ autophosphorylates itself and transfers phosphoryl group to OmpR; osmolarity sensor protein complement(3465717..3467069) Shigella flexneri 5 str. 8401 4207729 YP_690757.1 CDS ompR NC_008258.1 3467066 3467785 R 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(3467066..3467785) Shigella flexneri 5 str. 8401 4207730 YP_690758.1 CDS greB NC_008258.1 3468013 3468489 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 3468013..3468489 Shigella flexneri 5 str. 8401 4207731 YP_690759.1 CDS yhgF NC_008258.1 3468586 3470907 D Code: K; COG: COG2183; hypothetical protein 3468586..3470907 Shigella flexneri 5 str. 8401 4207732 YP_690760.1 CDS feoA NC_008258.1 3471345 3471572 D Code: P; COG: COG1918; ferrous iron transport protein A 3471345..3471572 Shigella flexneri 5 str. 8401 4207733 YP_690761.1 CDS feoB NC_008258.1 3471589 3473910 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 3471589..3473910 Shigella flexneri 5 str. 8401 4207734 YP_690762.1 CDS yhgG NC_008258.1 3473901 3474146 D hypothetical protein 3473901..3474146 Shigella flexneri 5 str. 8401 4207735 YP_690763.1 CDS yhgA NC_008258.1 3474349 3475236 D Code: S; COG: COG5464; hypothetical protein 3474349..3475236 Shigella flexneri 5 str. 8401 4207736 YP_690764.1 CDS SFV_3417 NC_008258.1 3475312 3475677 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 3475312..3475677 Shigella flexneri 5 str. 8401 4207737 YP_690765.1 CDS SFV_3418 NC_008258.1 3475701 3476540 D Code: L; COG: COG2801; IS2 ORF2 3475701..3476540 Shigella flexneri 5 str. 8401 4207738 YP_690766.1 CDS SFV_3419 NC_008258.1 3476899 3477264 D Code: T; COG: COG2337; growth inhibitor, PemK-like, autoregulated 3476899..3477264 Shigella flexneri 5 str. 8401 4207739 YP_690767.1 CDS bioH NC_008258.1 3477265 3477972 R Shows carboxylesterase activity with a preference for short chain fatty acid esters; involved in pimeloyl-CoA synthesis; carboxylesterase BioH complement(3477265..3477972) Shigella flexneri 5 str. 8401 4210482 YP_690768.1 CDS yhgH NC_008258.1 3478043 3478774 D involved in high-affinity gluconate transport; gluconate periplasmic binding protein 3478043..3478774 Shigella flexneri 5 str. 8401 4210483 YP_690769.1 CDS yhgI NC_008258.1 3478833 3479408 D cytoplasmic protein that may be involved in the utilization of double-stranded DNA as a carbon source; DNA uptake protein 3478833..3479408 Shigella flexneri 5 str. 8401 4210484 YP_690770.1 CDS gntT NC_008258.1 3479769 3481085 D Code: GE; COG: COG2610; high-affinity transport permease for gluconate 3479769..3481085 Shigella flexneri 5 str. 8401 4210485 YP_690771.1 CDS malQ NC_008258.1 3481130 3483214 R amylomaltase; acts to release glucose from maltodextrins; 4-alpha-glucanotransferase complement(3481130..3483214) Shigella flexneri 5 str. 8401 4210486 YP_690772.1 CDS malP NC_008258.1 3483224 3485617 R Code: G; COG: COG0058; maltodextrin phosphorylase complement(3483224..3485617) Shigella flexneri 5 str. 8401 4210487 YP_690773.1 CDS malT NC_008258.1 3486229 3488934 D Positively regulates the transcription of the maltose regulon whose gene products are responsible for uptake and catabolism of malto-oligosaccharides; transcriptional regulator MalT 3486229..3488934 Shigella flexneri 5 str. 8401 4210488 YP_690774.1 CDS yhgKJ NC_008258.1 3488977 3489879 R catalyzes the conversion of terminal3'-phosphate of RNA to the 2',3'-cyclicphosphodiester; RNA 3'-terminal-phosphate cyclase complement(3488977..3489879) Shigella flexneri 5 str. 8401 4210489 YP_690775.1 CDS rtcB NC_008258.1 3489883 3491109 R Code: S; COG: COG1690; hypothetical protein complement(3489883..3491109) Shigella flexneri 5 str. 8401 4210490 YP_690776.1 CDS rtcR NC_008258.1 3491298 3492896 D Code: KT; COG: COG4650; 2-component regulator 3491298..3492896 Shigella flexneri 5 str. 8401 4210491 YP_690777.1 CDS glpR NC_008258.1 3492878 3493636 R represses the glpD, glpFK, glpTQ, and glpACB operons involved in glycerol-3-phosphate metabolism; DNA-binding transcriptional repressor GlpR complement(3492878..3493636) Shigella flexneri 5 str. 8401 4210492 YP_690778.1 CDS glpG NC_008258.1 3493653 3494426 R protease responsible for the cleavage between Ser and Asp residues of proteins in regions of high local hydrophilicity; intramembrane serine protease GlpG complement(3493653..3494426) Shigella flexneri 5 str. 8401 4210493 YP_690779.1 CDS glpE NC_008258.1 3494528 3494854 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(3494528..3494854) Shigella flexneri 5 str. 8401 4210494 YP_690780.1 CDS glpD NC_008258.1 3495044 3496549 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 3495044..3496549 Shigella flexneri 5 str. 8401 4210495 YP_690781.1 CDS yzgL NC_008258.1 3496755 3497036 R hypothetical protein complement(3496755..3497036) Shigella flexneri 5 str. 8401 4210496 YP_690782.1 CDS SFV_3435 NC_008258.1 3497156 3498166 R Code: L; COG: COG3385; IS4 orf complement(3497156..3498166) Shigella flexneri 5 str. 8401 4210497 YP_690783.1 CDS SFV_3436 NC_008258.1 3498180 3498503 R IS4 orf complement(3498180..3498503) Shigella flexneri 5 str. 8401 4210498 YP_690784.1 CDS glgP NC_008258.1 3498603 3501050 R Code: G; COG: COG0058; glycogen phosphorylase complement(3498603..3501050) Shigella flexneri 5 str. 8401 4210499 YP_690785.1 CDS glgA NC_008258.1 3501069 3502502 R catalyzes the formation of alpha-1,4-glucan chains from ADP-glucose; glycogen synthase complement(3501069..3502502) Shigella flexneri 5 str. 8401 4210500 YP_690786.1 CDS glgC NC_008258.1 3502502 3503797 R catalyzes the formation of ADP-glucose and diphosphate from ATP and alpha-D-glucose 1-phosphate; glucose-1-phosphate adenylyltransferase complement(3502502..3503797) Shigella flexneri 5 str. 8401 4207644 YP_690787.1 CDS glgX NC_008258.1 3503815 3505788 R catalyzes the hydrolysis of the alpha-1,6-glucosidic linkages in partially depolymerized glycogen; glycogen debranching enzyme complement(3503815..3505788) Shigella flexneri 5 str. 8401 4207645 YP_690788.1 CDS glgB NC_008258.1 3505785 3507971 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 enzyme complement(3505785..3507971) Shigella flexneri 5 str. 8401 4207646 YP_690789.1 CDS asd NC_008258.1 3508244 3509347 R catalyzes the formation of 4-aspartyl phosphate from aspartate 4-semialdehyde; aspartate-semialdehyde dehydrogenase complement(3508244..3509347) Shigella flexneri 5 str. 8401 4207647 YP_690790.1 CDS yhgN NC_008258.1 3509581 3510132 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 3509581..3510132 Shigella flexneri 5 str. 8401 4207648 YP_690791.1 CDS gntK NC_008258.1 3511532 3512059 R thermoresistant; catalyzes the formation of 6-phospho-D-gluconate from gluconate; gluconate kinase 1 complement(3511532..3512059) Shigella flexneri 5 str. 8401 4207650 YP_690792.1 CDS gntR NC_008258.1 3512198 3513136 R Code: K; COG: COG1609; regulator of gluconate (gnt) operon complement(3512198..3513136) Shigella flexneri 5 str. 8401 4207651 YP_690793.1 CDS yhhW NC_008258.1 3513417 3514112 R Code: R; COG: COG1741; hypothetical protein complement(3513417..3514112) Shigella flexneri 5 str. 8401 4207652 YP_690794.1 CDS yhhX NC_008258.1 3514235 3515272 R Code: R; COG: COG0673; dehydrogenase complement(3514235..3515272) Shigella flexneri 5 str. 8401 4207653 YP_690795.1 CDS yhhY NC_008258.1 3515527 3516093 D YhhY; regulated by the fur regulator; unknown function; acetyltransferase YhhY 3515527..3516093 Shigella flexneri 5 str. 8401 4207654 YP_690796.1 CDS ggt NC_008258.1 3516152 3517894 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(3516152..3517894) Shigella flexneri 5 str. 8401 4207655 YP_690797.1 CDS yhhA NC_008258.1 3518014 3518454 D hypothetical protein 3518014..3518454 Shigella flexneri 5 str. 8401 4207656 YP_690798.1 CDS ugpQ NC_008258.1 3518441 3519184 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; cytoplasmic glycerophosphodiester phosphodiesterase complement(3518441..3519184) Shigella flexneri 5 str. 8401 4207657 YP_690799.1 CDS ugpE NC_008258.1 3520173 3521018 R with UgpABC is involved in uptake of glycerol-3-phosphate; glycerol-3-phosphate transporter membrane protein complement(3520173..3521018) Shigella flexneri 5 str. 8401 4207659 YP_690800.1 CDS ugpA NC_008258.1 3521015 3521902 R with UgpEC is involved in the uptake of glycerol-3-phosphate; glycerol-3-phosphate transporter permease complement(3521015..3521902) Shigella flexneri 5 str. 8401 4207660 YP_690801.1 CDS ugpB NC_008258.1 3522000 3523316 R with UgpACE is involved in the uptake of glycerol-3-phosphate; glycerol-3-phosphate transporter periplasmic binding protein complement(3522000..3523316) Shigella flexneri 5 str. 8401 4207661 YP_690802.1 CDS livF NC_008258.1 3523713 3524426 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(3523713..3524426) Shigella flexneri 5 str. 8401 4207662 YP_690803.1 CDS livG NC_008258.1 3524428 3525195 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(3524428..3525195) Shigella flexneri 5 str. 8401 4207663 YP_690804.1 CDS livM NC_008258.1 3525192 3526400 R 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(3525192..3526400) Shigella flexneri 5 str. 8401 4209026 YP_690805.1 CDS livH NC_008258.1 3526466 3527359 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(3526466..3527359) Shigella flexneri 5 str. 8401 4209027 YP_690806.1 CDS livK NC_008258.1 3527440 3528555 R Code: E; COG: COG0683; leucine-specific binding protein complement(3527440..3528555) Shigella flexneri 5 str. 8401 4209028 YP_690807.1 CDS yhhK NC_008258.1 3528973 3529356 D hypothetical protein 3528973..3529356 Shigella flexneri 5 str. 8401 4209029 YP_690808.1 CDS livJ NC_008258.1 3529555 3530658 R Code: E; COG: COG0683; Leu/Ile/Val-binding protein complement(3529555..3530658) Shigella flexneri 5 str. 8401 4209030 YP_690809.1 CDS rpoH NC_008258.1 3530929 3531783 R 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(3530929..3531783) Shigella flexneri 5 str. 8401 4209031 YP_690810.1 CDS ftsX NC_008258.1 3532029 3533087 R ABC transporter, membrane protein; cell division protein FtsX complement(3532029..3533087) Shigella flexneri 5 str. 8401 4209032 YP_690811.1 CDS ftsE NC_008258.1 3533080 3533748 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(3533080..3533748) Shigella flexneri 5 str. 8401 4209033 YP_690812.1 CDS rsmD NC_008258.1 3535326 3535922 D catalyzes the methylation of 16S rRNA at position G966; 16S rRNA m(2)G966-methyltransferase 3535326..3535922 Shigella flexneri 5 str. 8401 4209035 YP_690813.1 CDS yhhL NC_008258.1 3535912 3536181 D Code: S; COG: COG3776; hypothetical protein 3535912..3536181 Shigella flexneri 5 str. 8401 4209036 YP_690814.1 CDS yhhM NC_008258.1 3536184 3536543 R receptor complement(3536184..3536543) Shigella flexneri 5 str. 8401 4209037 YP_690815.1 CDS yhhN NC_008258.1 3536684 3537310 D Code: S; COG: COG3714; hypothetical protein 3536684..3537310 Shigella flexneri 5 str. 8401 4209038 YP_690816.1 CDS zntA NC_008258.1 3537384 3539582 D P-type ATPase involved in the export of lead, cadmium, zinc and mercury; zinc/cadmium/mercury/lead-transporting ATPase 3537384..3539582 Shigella flexneri 5 str. 8401 4209039 YP_690817.1 CDS yhhP NC_008258.1 3539684 3539929 R TusA; transfers sulfur to TusBCD complex; involved in thiouridation of U34 position of some tRNAs; sulfur transfer protein SirA complement(3539684..3539929) Shigella flexneri 5 str. 8401 4209040 YP_690818.1 CDS yhhQ NC_008258.1 3540186 3540815 D Code: S; COG: COG1738; hypothetical protein 3540186..3540815 Shigella flexneri 5 str. 8401 4209041 YP_690819.1 CDS SFV_3475 NC_008258.1 3540888 3541445 D hypothetical protein 3540888..3541445 Shigella flexneri 5 str. 8401 4209042 YP_690820.2 CDS yhhS NC_008258.1 3541449 3542666 R Code: GEPR; COG: COG0477; major facilitator superfamily transporter complement(3541449..3542666) Shigella flexneri 5 str. 8401 4209043 YP_690821.1 CDS yhhT NC_008258.1 3542800 3543849 D Code: R; COG: COG0628; hypothetical protein 3542800..3543849 Shigella flexneri 5 str. 8401 4209044 YP_690822.1 CDS yhhU NC_008258.1 3543904 3544491 D Code: H; COG: COG2091; holo-(acyl carrier protein) synthase 2 3543904..3544491 Shigella flexneri 5 str. 8401 4210674 YP_690823.1 CDS nikA NC_008258.1 3544602 3546176 D Code: E; COG: COG0747; periplasmic binding protein for nickel 3544602..3546176 Shigella flexneri 5 str. 8401 4210675 YP_690824.1 CDS nikB NC_008258.1 3546176 3547120 D with NikACDE is involved in nickel transport into the cell; nickel transporter permease NikB 3546176..3547120 Shigella flexneri 5 str. 8401 4210676 YP_690825.1 CDS nikC NC_008258.1 3547117 3547950 D with NikABDE is involved in nickel transport into the cell; nickel transporter permease NikC 3547117..3547950 Shigella flexneri 5 str. 8401 4210677 YP_690826.1 CDS nikD NC_008258.1 3547950 3548714 D with NikABCE is involved in nickel transport into the cell; nickel transporter ATP-binding protein NikD 3547950..3548714 Shigella flexneri 5 str. 8401 4210678 YP_690827.1 CDS nikE NC_008258.1 3548711 3549517 D with NikABCD is involved with nickel transport into the cell; nickel transporter ATP-binding protein NikE 3548711..3549517 Shigella flexneri 5 str. 8401 4210679 YP_690828.1 CDS yhhG NC_008258.1 3549523 3549924 D Inhibits transcription at high concentrations of nickel; nickel responsive regulator 3549523..3549924 Shigella flexneri 5 str. 8401 4210680 YP_690829.1 CDS hicB NC_008258.1 3550044 3550403 R Code: S; COG: COG4226; hypothetical protein complement(3550044..3550403) Shigella flexneri 5 str. 8401 4210681 YP_690830.1 CDS yhhJ NC_008258.1 3550734 3551858 R Code: V; COG: COG0842; transporter complement(3550734..3551858) Shigella flexneri 5 str. 8401 4210682 YP_690831.1 CDS yhiH NC_008258.1 3551858 3554593 R ABC transporter ATP-binding protein complement(3551858..3554593) Shigella flexneri 5 str. 8401 4210683 YP_690832.1 CDS yhiI NC_008258.1 3554590 3555657 R Code: M; COG: COG0845; hypothetical protein complement(3554590..3555657) Shigella flexneri 5 str. 8401 4210684 YP_690833.1 CDS yhiJ NC_008258.1 3556023 3557645 R hypothetical protein complement(3556023..3557645) Shigella flexneri 5 str. 8401 4210685 YP_690834.1 CDS yhiL NC_008258.1 3557907 3559682 R hypothetical protein complement(3557907..3559682) Shigella flexneri 5 str. 8401 4210686 YP_690835.1 CDS SFV_3491 NC_008258.1 3559957 3560445 D hypothetical protein 3559957..3560445 Shigella flexneri 5 str. 8401 4210687 YP_690836.1 CDS SFV_3492 NC_008258.1 3561468 3562232 R hypothetical protein complement(3561468..3562232) Shigella flexneri 5 str. 8401 4210688 YP_690837.1 CDS SFV_3493 NC_008258.1 3562511 3563239 D hypothetical protein 3562511..3563239 Shigella flexneri 5 str. 8401 4210689 YP_690838.1 CDS SFV_3494 NC_008258.1 3563346 3563858 R hypothetical protein complement(3563346..3563858) Shigella flexneri 5 str. 8401 4210690 YP_690839.1 CDS SFV_3495 NC_008258.1 3563997 3565145 R fimbriae usher complement(3563997..3565145) Shigella flexneri 5 str. 8401 4210691 YP_690840.1 CDS SFV_3496 NC_008258.1 3565237 3565602 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 3565237..3565602 Shigella flexneri 5 str. 8401 4210692 YP_690841.2 CDS SFV_3497 NC_008258.1 3565560 3566465 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 3565560..3566465 Shigella flexneri 5 str. 8401 4210693 YP_690842.1 CDS SFV_3498 NC_008258.1 3566720 3567712 R fimbrial protein remnant complement(3566720..3567712) Shigella flexneri 5 str. 8401 4206918 YP_690843.1 CDS SFV_3499 NC_008258.1 3567843 3568646 R Code: NU; COG: COG3121; periplasmic fimbrial chaperone protein complement(3567843..3568646) Shigella flexneri 5 str. 8401 4206919 YP_690844.1 CDS SFV_3500 NC_008258.1 3569806 3571080 R hypothetical protein complement(3569806..3571080) Shigella flexneri 5 str. 8401 4206920 YP_690845.1 CDS SFV_3501 NC_008258.1 3571096 3571395 D Code: L; COG: COG2963; IS600 ORF1 3571096..3571395 Shigella flexneri 5 str. 8401 4206921 YP_690846.1 CDS insB NC_008258.1 3571406 3571801 R Code: L; COG: COG1662; IS1 ORF2 complement(3571406..3571801) Shigella flexneri 5 str. 8401 4206922 YP_690847.1 CDS SFV_3503 NC_008258.1 3571984 3572226 D IS1 encoded protein 3571984..3572226 Shigella flexneri 5 str. 8401 4206923 YP_690848.1 CDS yhiN NC_008258.1 3572632 3573786 R Code: R; COG: COG2081; hypothetical protein complement(3572632..3573786) Shigella flexneri 5 str. 8401 4206924 YP_690849.1 CDS pitA NC_008258.1 3574063 3575562 D Code: P; COG: COG0306; inorganic phosphate transporter 3574063..3575562 Shigella flexneri 5 str. 8401 4206925 YP_690850.1 CDS yhiO NC_008258.1 3575633 3575968 R ppGpp-dependent, membrane associated, stress protein produced under conditions of nutrient deprivation, osmotic shock and oxidative stress; universal stress protein UspB complement(3575633..3575968) Shigella flexneri 5 str. 8401 4206926 YP_690851.1 CDS uspA NC_008258.1 3576359 3576793 D Code: T; COG: COG0589; universal stress protein 3576359..3576793 Shigella flexneri 5 str. 8401 4206927 YP_690852.1 CDS yhiQ NC_008258.1 3578629 3579381 R predicted SAM-dependent methyltransferase; methyltransferase complement(3578629..3579381) Shigella flexneri 5 str. 8401 4206929 YP_690853.1 CDS prlC NC_008258.1 3579389 3581431 R Code: E; COG: COG0339; oligopeptidase A complement(3579389..3581431) Shigella flexneri 5 str. 8401 4206930 YP_690854.1 CDS yhiR NC_008258.1 3581583 3582476 D Code: R; COG: COG2961; hypothetical protein 3581583..3582476 Shigella flexneri 5 str. 8401 4206931 YP_690855.1 CDS gor NC_008258.1 3582548 3583900 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 3582548..3583900 Shigella flexneri 5 str. 8401 4206932 YP_690856.1 CDS arsR NC_008258.1 3584780 3585133 D regulates the expression of of the arsRBC involved in resistance to arsenic; DNA-binding transcriptional repressor ArsR 3584780..3585133 Shigella flexneri 5 str. 8401 4206933 YP_690857.1 CDS arsB NC_008258.1 3585187 3586476 D Code: P; COG: COG1055; arsenical pump membrane protein 3585187..3586476 Shigella flexneri 5 str. 8401 4206934 YP_690858.1 CDS arsC NC_008258.1 3586489 3586914 D Code: P; COG: COG1393; arsenate reductase 3586489..3586914 Shigella flexneri 5 str. 8401 4206935 YP_690859.1 CDS SFV_3516 NC_008258.1 3587413 3587664 R IS1 encoded protein complement(3587413..3587664) Shigella flexneri 5 str. 8401 4206936 YP_690860.1 CDS insB NC_008258.1 3587739 3588242 D Code: L; COG: COG1662; IS1 ORF2 3587739..3588242 Shigella flexneri 5 str. 8401 4208302 YP_690861.1 CDS SFV_3518 NC_008258.1 3588267 3589229 D Code: R; COG: COG0701; hypothetical protein 3588267..3589229 Shigella flexneri 5 str. 8401 4208303 YP_690862.1 CDS SFV_3519 NC_008258.1 3589810 3591033 D hypothetical protein 3589810..3591033 Shigella flexneri 5 str. 8401 4208304 YP_690863.1 CDS slp NC_008258.1 3591115 3591846 D Code: M; COG: COG3065; outer membrane protein induced after carbon starvation 3591115..3591846 Shigella flexneri 5 str. 8401 4208305 YP_690864.1 CDS yhiF NC_008258.1 3592002 3592532 D Code: K; COG: COG2771; hypothetical protein 3592002..3592532 Shigella flexneri 5 str. 8401 4208306 YP_690865.1 CDS hdeB NC_008258.1 3593284 3593610 R acid-resistance protein complement(3593284..3593610) Shigella flexneri 5 str. 8401 4208308 YP_690866.1 CDS hdeA NC_008258.1 3593726 3594058 R inactive form; acid-resistance protein complement(3593726..3594058) Shigella flexneri 5 str. 8401 4208309 YP_690867.1 CDS hdeD NC_008258.1 3594313 3594885 D Code: S; COG: COG3247; acid-resistance membrane protein 3594313..3594885 Shigella flexneri 5 str. 8401 4208310 YP_690868.1 CDS yhiE NC_008258.1 3595684 3596211 D Code: K; COG: COG2771; hypothetical protein 3595684..3596211 Shigella flexneri 5 str. 8401 4208311 YP_690869.1 CDS insB NC_008258.1 3597608 3598111 R Code: L; COG: COG1662; IS1 ORF2 complement(3597608..3598111) Shigella flexneri 5 str. 8401 4208313 YP_690870.1 CDS SFV_3529 NC_008258.1 3598225 3598854 D Code: L; COG: COG2963; IS150 ORF1(ORF A) 3598225..3598854 Shigella flexneri 5 str. 8401 4208314 YP_690871.1 CDS SFV_3530 NC_008258.1 3598851 3599702 D Code: L; COG: COG2801; IS150 ORF2 3598851..3599702 Shigella flexneri 5 str. 8401 4208315 YP_690872.1 CDS cspA NC_008258.1 3600143 3600355 R Code: K; COG: COG1278; cold-shock protein complement(3600143..3600355) Shigella flexneri 5 str. 8401 4208316 YP_690873.1 CDS yiaG NC_008258.1 3600636 3600926 R Code: K; COG: COG2944; transcriptional regulator complement(3600636..3600926) Shigella flexneri 5 str. 8401 4208317 YP_690874.1 CDS yiaF NC_008258.1 3601240 3602070 D hypothetical protein 3601240..3602070 Shigella flexneri 5 str. 8401 4208318 YP_690875.1 CDS yiaE NC_008258.1 3602120 3603094 R Code: CHR; COG: COG1052; 2-hydroxyacid dehydrogenase complement(3602120..3603094) Shigella flexneri 5 str. 8401 4208319 YP_690876.1 CDS yiaD NC_008258.1 3603198 3603848 R Code: M; COG: COG2885; outer membrane lipoprotein complement(3603198..3603848) Shigella flexneri 5 str. 8401 4208320 YP_690877.1 CDS bisC NC_008258.1 3604065 3606344 D Code: C; COG: COG0243; biotin sulfoxide reductase 3604065..3606344 Shigella flexneri 5 str. 8401 4208321 YP_690878.1 CDS yiaC NC_008258.1 3606313 3606753 R Code: KR; COG: COG0454; hypothetical protein complement(3606313..3606753) Shigella flexneri 5 str. 8401 4208168 YP_690879.2 CDS tag NC_008258.1 3606750 3607313 R constitutive, catalyzes the hydrolysis of alkylated DNA, releasing 3-methyladenine; 3-methyl-adenine DNA glycosylase I complement(3606750..3607313) Shigella flexneri 5 str. 8401 4208170 YP_690880.1 CDS yhjY NC_008258.1 3607471 3608169 D Code: N; COG: COG5571; lipase 3607471..3608169 Shigella flexneri 5 str. 8401 4208169 YP_690881.1 CDS yhjX NC_008258.1 3608398 3609606 D Code: GEPR; COG: COG0477; resistance protein 3608398..3609606 Shigella flexneri 5 str. 8401 4208171 YP_690882.1 CDS yhjW NC_008258.1 3609930 3611621 D catalyzes the addition of a phosphoethanolamine group to the outer Kdo residue of lipopolysaccharide; phosphoethanolamine transferase 3609930..3611621 Shigella flexneri 5 str. 8401 4208172 YP_690883.1 CDS dppA NC_008258.1 3612534 3614141 D Code: E; COG: COG0747; dipeptide transport protein 3612534..3614141 Shigella flexneri 5 str. 8401 4208174 YP_690884.1 CDS dppB NC_008258.1 3614449 3615468 D transports peptides consisting of two or three amino acids; dipeptide transporter permease DppB 3614449..3615468 Shigella flexneri 5 str. 8401 4208175 YP_690885.1 CDS dppD NC_008258.1 3616392 3617375 D DppD and DppF are the ATP-binding components of the ABC dipeptide transport system DppABCDF; dipeptide transporter ATP-binding subunit 3616392..3617375 Shigella flexneri 5 str. 8401 4208177 YP_690886.1 CDS dppF NC_008258.1 3617372 3618376 D Part of the ABC transporter complex DppABCDF involved in the transport of dipeptides; dipeptide transporter ATP-binding subunit 3617372..3618376 Shigella flexneri 5 str. 8401 4208178 YP_690887.1 CDS yhjV NC_008258.1 3618406 3619740 R Code: E; COG: COG0814; transporter protein complement(3618406..3619740) Shigella flexneri 5 str. 8401 4208179 YP_690888.1 CDS yhjU NC_008258.1 3621313 3622992 R hypothetical protein complement(3621313..3622992) Shigella flexneri 5 str. 8401 4208180 YP_690889.1 CDS yhjT NC_008258.1 3622989 3623180 R hypothetical protein complement(3622989..3623180) Shigella flexneri 5 str. 8401 4208181 YP_690890.1 CDS insB NC_008258.1 3624510 3625013 D Code: L; COG: COG1662; IS1 ORF2 3624510..3625013 Shigella flexneri 5 str. 8401 4208182 YP_690891.1 CDS yhjR NC_008258.1 3625798 3625986 D hypothetical protein 3625798..3625986 Shigella flexneri 5 str. 8401 4208184 YP_690892.1 CDS yhjQ NC_008258.1 3625998 3626750 D Code: D; COG: COG1192; cell division protein 3625998..3626750 Shigella flexneri 5 str. 8401 4208185 YP_690893.1 CDS yhjN NC_008258.1 3629288 3631714 D binds the cellulose synthase activator, bis-(3'-5') cyclic diguanylic acid (c-di-GMP); cellulose synthase regulator protein 3629288..3631714 Shigella flexneri 5 str. 8401 4207813 YP_690894.1 CDS yhjM NC_008258.1 3631721 3632827 D catalyzes the hydrolysis of 1,4-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; endo-1,4-D-glucanase 3631721..3632827 Shigella flexneri 5 str. 8401 4207814 YP_690895.2 CDS yhjK NC_008258.1 3635253 3637208 D 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 from E. coli; phosphodiesterase 3635253..3637208 Shigella flexneri 5 str. 8401 4207816 YP_690896.1 CDS dctA NC_008258.1 3637393 3638679 D involved in the transport of C4-dicarboxylates across the membrane; C4-dicarboxylate transporter DctA 3637393..3638679 Shigella flexneri 5 str. 8401 4207817 YP_690897.1 CDS yhjJ NC_008258.1 3638900 3640396 D Code: R; COG: COG0612; hypothetical protein 3638900..3640396 Shigella flexneri 5 str. 8401 4207818 YP_690898.1 CDS kdgK NC_008258.1 3640492 3641640 R Code: G; COG: COG0524; ketodeoxygluconokinase complement(3640492..3641640) Shigella flexneri 5 str. 8401 4207819 YP_690899.1 CDS yhjH NC_008258.1 3641653 3642420 D in Escherichia coli this protein is involved in flagellar function; diguanylate phosphodiesterase 3641653..3642420 Shigella flexneri 5 str. 8401 4207820 YP_690900.1 CDS yhjG NC_008258.1 3642490 3644550 D Code: M; COG: COG2982; hypothetical protein 3642490..3644550 Shigella flexneri 5 str. 8401 4207821 YP_690901.1 CDS yhjE NC_008258.1 3644732 3646054 R Code: GEPR; COG: COG0477; transport protein complement(3644732..3646054) Shigella flexneri 5 str. 8401 4207822 YP_690902.1 CDS yhjD NC_008258.1 3646465 3647478 R Code: S; COG: COG1295; hypothetical protein complement(3646465..3647478) Shigella flexneri 5 str. 8401 4207823 YP_690903.1 CDS yhjC NC_008258.1 3647527 3648498 R Code: K; COG: COG0583; LysR family transcriptional regulator complement(3647527..3648498) Shigella flexneri 5 str. 8401 4207824 YP_690904.1 CDS yhjB NC_008258.1 3648946 3649548 D Code: TK; COG: COG2197; regulator 3648946..3649548 Shigella flexneri 5 str. 8401 4207825 YP_690905.1 CDS SFV_3569 NC_008258.1 3649564 3650910 R Code: L; COG: COG3385; IS4 orf complement(3649564..3650910) Shigella flexneri 5 str. 8401 4207826 YP_690906.1 CDS treF NC_008258.1 3651037 3652686 R cytoplasmic; catalyzes the hydrolysis of trehalose to glucose; trehalase complement(3651037..3652686) Shigella flexneri 5 str. 8401 4207827 YP_690907.1 CDS SFV_3571 NC_008258.1 3652897 3653076 R IS1 encoded protein complement(3652897..3653076) Shigella flexneri 5 str. 8401 4207828 YP_690908.1 CDS insB NC_008258.1 3653151 3653654 D Code: L; COG: COG1662; IS1 ORF2 3653151..3653654 Shigella flexneri 5 str. 8401 4207829 YP_690909.1 CDS SFV_3573 NC_008258.1 3653808 3654077 R Code: S; COG: COG3152; hypothetical protein complement(3653808..3654077) Shigella flexneri 5 str. 8401 4207830 YP_690910.1 CDS yiiQ NC_008258.1 3654178 3654777 D hypothetical protein 3654178..3654777 Shigella flexneri 5 str. 8401 4207831 YP_690911.1 CDS tpiA NC_008258.1 3654885 3655652 D Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate; triosephosphate isomerase 3654885..3655652 Shigella flexneri 5 str. 8401 4207528 YP_690912.1 CDS cdh NC_008258.1 3655707 3656654 R Code: I; COG: COG2134; CDP-diacylglycerol pyrophosphatase complement(3655707..3656654) Shigella flexneri 5 str. 8401 4207529 YP_690913.1 CDS sbp NC_008258.1 3656569 3657558 R Code: P; COG: COG1613; sulfate transporter subunit complement(3656569..3657558) Shigella flexneri 5 str. 8401 4207530 YP_690914.1 CDS pfkA NC_008258.1 3657878 3658900 R catalyzes the formation of D-fructose 1,6-bisphosphate from D-fructose 6-phosphate in glycolysis; 6-phosphofructokinase complement(3657878..3658900) Shigella flexneri 5 str. 8401 4207531 YP_690915.1 CDS fieF NC_008258.1 3659021 3659923 R 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 complement(3659021..3659923) Shigella flexneri 5 str. 8401 4207532 YP_690916.1 CDS cpxP NC_008258.1 3660071 3660571 R 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; periplasmic repressor CpxP complement(3660071..3660571) Shigella flexneri 5 str. 8401 4207533 YP_690917.1 CDS cpxR NC_008258.1 3660787 3661419 D response regulator in two-component regulatory system with CpxA; part of the envelope stress response system; DNA-binding transcriptional regulator CpxR 3660787..3661419 Shigella flexneri 5 str. 8401 4207534 YP_690918.1 CDS cpxA NC_008258.1 3661416 3662789 D part of two-component CpxA/CpxR system; senses envelope stress; upregulates a number of periplasmic folding and trafficking factors; two-component sensor protein 3661416..3662789 Shigella flexneri 5 str. 8401 4207535 YP_690919.1 CDS yiiM NC_008258.1 3662895 3663569 R Code: S; COG: COG2258; hypothetical protein complement(3662895..3663569) Shigella flexneri 5 str. 8401 4207536 YP_690920.1 CDS SFV_3584 NC_008258.1 3663796 3664161 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 3663796..3664161 Shigella flexneri 5 str. 8401 4207537 YP_690921.1 CDS SFV_3585 NC_008258.1 3664185 3665024 D Code: L; COG: COG2801; IS2 ORF2 3664185..3665024 Shigella flexneri 5 str. 8401 4207538 YP_690922.2 CDS kdgT NC_008258.1 3665054 3666037 R transports degraded pectin products into the bacterial cell; 2-keto-3-deoxygluconate permease complement(3665054..3666037) Shigella flexneri 5 str. 8401 4207539 YP_690923.1 CDS sodA NC_008258.1 3666296 3666916 R SodA; manganese binding; only present under aerobic conditions; destroys free radicals; superoxide dismutase complement(3666296..3666916) Shigella flexneri 5 str. 8401 4207540 YP_690924.1 CDS rhaR NC_008258.1 3668400 3669191 R Code: K; COG: COG2207; positive regulator for rhaRS operon complement(3668400..3669191) Shigella flexneri 5 str. 8401 4207542 YP_690925.1 CDS rhaS NC_008258.1 3669154 3669990 R activates the expression of the rhaBAD operon and rhaT gene; transcriptional activator RhaS complement(3669154..3669990) Shigella flexneri 5 str. 8401 4207543 YP_690926.1 CDS rhaB NC_008258.1 3670278 3671747 D catalyzes the ATP-dependent phosphorylation of rhamnulose; rhamnulokinase 3670278..3671747 Shigella flexneri 5 str. 8401 4207544 YP_690927.1 CDS rhaA NC_008258.1 3671744 3673003 D catalyzes the formation of L-rhamnulose from L-rhamnose; L-rhamnose isomerase 3671744..3673003 Shigella flexneri 5 str. 8401 4207545 YP_690928.1 CDS rhaD NC_008258.1 3673428 3674069 D Code: G; COG: COG0235; rhamnulose-1-phosphate aldolase 3673428..3674069 Shigella flexneri 5 str. 8401 4207546 YP_690929.1 CDS yiiL NC_008258.1 3674079 3674393 D Code: S; COG: COG3254; hypothetical protein 3674079..3674393 Shigella flexneri 5 str. 8401 4208362 YP_690930.1 CDS frvA NC_008258.1 3674694 3675140 D 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 3674694..3675140 Shigella flexneri 5 str. 8401 4208363 YP_690931.1 CDS frvB NC_008258.1 3675151 3676602 D Code: G; COG: COG1299; PTS system transporter subunits IIBC 3675151..3676602 Shigella flexneri 5 str. 8401 4208364 YP_690932.1 CDS frvX NC_008258.1 3676592 3677662 D 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 3676592..3677662 Shigella flexneri 5 str. 8401 4208365 YP_690933.1 CDS frvR NC_008258.1 3677662 3678312 D frv operon regulatory protein 3677662..3678312 Shigella flexneri 5 str. 8401 4208366 YP_690934.1 CDS insB NC_008258.1 3678540 3679043 D Code: L; COG: COG1662; IS1 ORF2 3678540..3679043 Shigella flexneri 5 str. 8401 4208367 YP_690935.1 CDS fdhD NC_008258.1 3679115 3679948 R 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 complement(3679115..3679948) Shigella flexneri 5 str. 8401 4208368 YP_690936.1 CDS fdoG NC_008258.1 3680142 3683192 D Code: C; COG: COG0243; formate dehydrogenase-O, major subunit 3680142..3683192 Shigella flexneri 5 str. 8401 4208369 YP_690937.1 CDS fdoH NC_008258.1 3683205 3684107 D Code: C; COG: COG0437; formate dehydrogenase-O, iron-sulfur subunit 3683205..3684107 Shigella flexneri 5 str. 8401 4208370 YP_690938.1 CDS fdoI NC_008258.1 3684104 3684739 D cytochrome b556(FDO) component; heme containing; formate dehydrogenase-O subunit gamma 3684104..3684739 Shigella flexneri 5 str. 8401 4208371 YP_690939.1 CDS fdhE NC_008258.1 3684736 3685665 D required for the formation of active formate dehydrogenase; formate dehydrogenase accessory protein FdhE 3684736..3685665 Shigella flexneri 5 str. 8401 4208372 YP_690940.1 CDS yiiF NC_008258.1 3685995 3686237 R hypothetical protein complement(3685995..3686237) Shigella flexneri 5 str. 8401 4208373 YP_690941.1 CDS yiiE NC_008258.1 3686455 3686817 R hypothetical protein complement(3686455..3686817) Shigella flexneri 5 str. 8401 4208374 YP_690942.1 CDS SFV_3607 NC_008258.1 3687352 3688674 R hypothetical protein complement(3687352..3688674) Shigella flexneri 5 str. 8401 4208375 YP_690943.1 CDS SFV_3608 NC_008258.1 3688655 3688993 R hypothetical protein complement(3688655..3688993) Shigella flexneri 5 str. 8401 4208376 YP_690944.1 CDS SFV_3609 NC_008258.1 3688983 3689171 R IS1 encoded protein complement(3688983..3689171) Shigella flexneri 5 str. 8401 4208377 YP_690945.1 CDS insB NC_008258.1 3689246 3689749 D Code: L; COG: COG1662; IS1 ORF2 3689246..3689749 Shigella flexneri 5 str. 8401 4208378 YP_690946.1 CDS yiiD NC_008258.1 3690360 3691301 R Code: KR; COG: COG0454; acetyltransferase complement(3690360..3691301) Shigella flexneri 5 str. 8401 4208379 YP_690947.1 CDS yihZ NC_008258.1 3691346 3691783 R 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 complement(3691346..3691783) Shigella flexneri 5 str. 8401 4208380 YP_690948.1 CDS rbn NC_008258.1 3691780 3692652 R 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 complement(3691780..3692652) Shigella flexneri 5 str. 8401 4208381 YP_690949.1 CDS yihX NC_008258.1 3692646 3693245 R Code: R; COG: COG1011; phosphatase complement(3692646..3693245) Shigella flexneri 5 str. 8401 4208616 YP_690950.1 CDS yihW NC_008258.1 3693344 3694129 R Code: KG; COG: COG1349; DeoR-type transcriptional regulator complement(3693344..3694129) Shigella flexneri 5 str. 8401 4208617 YP_690951.1 CDS yihV NC_008258.1 3694163 3695059 R Code: G; COG: COG0524; kinase complement(3694163..3695059) Shigella flexneri 5 str. 8401 4208618 YP_690952.1 CDS yihU NC_008258.1 3695227 3696123 D Code: I; COG: COG2084; dehydrogenase 3695227..3696123 Shigella flexneri 5 str. 8401 4208619 YP_690953.1 CDS yihT NC_008258.1 3696147 3697025 D Code: G; COG: COG3684; aldolase 3696147..3697025 Shigella flexneri 5 str. 8401 4208620 YP_690954.1 CDS yihS NC_008258.1 3697042 3698283 D Code: G; COG: COG2942; hypothetical protein 3697042..3698283 Shigella flexneri 5 str. 8401 4208621 YP_690955.1 CDS yihR NC_008258.1 3698397 3699323 D Code: G; COG: COG2017; aldose-1-epimerase 3698397..3699323 Shigella flexneri 5 str. 8401 4208622 YP_690956.1 CDS yihQ NC_008258.1 3699522 3701558 D Code: G; COG: COG1501; alpha-glucosidase 3699522..3701558 Shigella flexneri 5 str. 8401 4208623 YP_690957.1 CDS yihP NC_008258.1 3701604 3702989 D Code: G; COG: COG2211; permease 3701604..3702989 Shigella flexneri 5 str. 8401 4208624 YP_690958.1 CDS yihO NC_008258.1 3703032 3704489 D Code: G; COG: COG2211; permease 3703032..3704489 Shigella flexneri 5 str. 8401 4208625 YP_690959.1 CDS SFV_3624 NC_008258.1 3704468 3704854 D hypothetical protein 3704468..3704854 Shigella flexneri 5 str. 8401 4208626 YP_690960.1 CDS insB NC_008258.1 3704848 3705351 R Code: L; COG: COG1662; IS1 ORF2 complement(3704848..3705351) Shigella flexneri 5 str. 8401 4208627 YP_690961.1 CDS yihN NC_008258.1 3705574 3706632 R Code: GEPR; COG: COG0477; resistance protein complement(3705574..3706632) Shigella flexneri 5 str. 8401 4208628 YP_690962.1 CDS yihM NC_008258.1 3706734 3707714 R hypothetical protein complement(3706734..3707714) Shigella flexneri 5 str. 8401 4208629 YP_690963.1 CDS yihL NC_008258.1 3707722 3708432 R Code: K; COG: COG2188; transcriptional regulator complement(3707722..3708432) Shigella flexneri 5 str. 8401 4208630 YP_690964.1 CDS SFV_3629 NC_008258.1 3708689 3710035 D Code: L; COG: COG3385; IS4 orf 3708689..3710035 Shigella flexneri 5 str. 8401 4208631 YP_690965.1 CDS yihK NC_008258.1 3710087 3711784 R Code: T; COG: COG1217; GTP-binding factor complement(3710087..3711784) Shigella flexneri 5 str. 8401 4208632 YP_690966.1 CDS glnA NC_008258.1 3712283 3713692 D 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 3712283..3713692 Shigella flexneri 5 str. 8401 4208633 YP_690967.1 CDS glnL NC_008258.1 3713865 3714914 D 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) 3713865..3714914 Shigella flexneri 5 str. 8401 4208634 YP_690968.1 CDS glnG NC_008258.1 3714926 3716335 D 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) 3714926..3716335 Shigella flexneri 5 str. 8401 4208990 YP_690969.1 CDS hemN NC_008258.1 3716785 3718158 R catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III; coproporphyrinogen III oxidase complement(3716785..3718158) Shigella flexneri 5 str. 8401 4208991 YP_690970.1 CDS yihI NC_008258.1 3718347 3718919 R Code: S; COG: COG3078; hypothetical protein complement(3718347..3718919) Shigella flexneri 5 str. 8401 4208992 YP_690971.1 CDS engB NC_008258.1 3719474 3720070 D 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 3719474..3720070 Shigella flexneri 5 str. 8401 4208993 YP_690972.1 CDS polA NC_008258.1 3720452 3723238 R 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 complement(3720452..3723238) Shigella flexneri 5 str. 8401 4208994 YP_690973.2 CDS yihG NC_008258.1 3723602 3724534 D Code: I; COG: COG0204; acyltransferase 3723602..3724534 Shigella flexneri 5 str. 8401 4208995 YP_690974.1 CDS insB NC_008258.1 3725335 3725838 R Code: L; COG: COG1662; IS1 ORF2 complement(3725335..3725838) Shigella flexneri 5 str. 8401 4208996 YP_690975.1 CDS dsbA NC_008258.1 3726936 3727562 R Code: OC; COG: COG0526; periplasmic protein disulfide isomerase I complement(3726936..3727562) Shigella flexneri 5 str. 8401 4208998 YP_690976.1 CDS yihE NC_008258.1 3727579 3728487 R 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 complement(3727579..3728487) Shigella flexneri 5 str. 8401 4208999 YP_690977.1 CDS yihD NC_008258.1 3728642 3728911 R Code: S; COG: COG3084; hypothetical protein complement(3728642..3728911) Shigella flexneri 5 str. 8401 4209000 YP_690978.1 CDS mobA NC_008258.1 3728990 3729565 D 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 3728990..3729565 Shigella flexneri 5 str. 8401 4209001 YP_690979.1 CDS mobB NC_008258.1 3729547 3730074 D 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 B 3729547..3730074 Shigella flexneri 5 str. 8401 4209002 YP_690980.1 CDS hemG NC_008258.1 3735564 3736109 R catalyzes the oxidation of protoporphyrinogen IX to form protoporphyrin IX; protoporphyrinogen oxidase complement(3735564..3736109) Shigella flexneri 5 str. 8401 4207978 YP_690981.1 CDS trkH NC_008258.1 3736121 3737572 R Code: P; COG: COG0168; potassium transporter complement(3736121..3737572) Shigella flexneri 5 str. 8401 4207979 YP_690982.1 CDS yigZ NC_008258.1 3737611 3738228 R Code: S; COG: COG1739; hypothetical protein complement(3737611..3738228) Shigella flexneri 5 str. 8401 4207980 YP_690983.1 CDS pepQ NC_008258.1 3738225 3739556 R 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 complement(3738225..3739556) Shigella flexneri 5 str. 8401 4207981 YP_690984.1 CDS fadB NC_008258.1 3739746 3741935 D includes enoyl-CoA hydratase, delta(3)-cis-delta(2)-trans-enoyl-CoA isomerase, 3-hydroxyacyl-CoA dehydrogenase, and 3-hydroxybutyryl-CoA epimerase; catalyzes the formation of an hydroxyacyl-CoA by addition of water on enoyl-CoA; also exhibits 3-hydroxyacyl-CoA epimerase and 3-hydroxyacyl-CoA dehydrogenase activities; forms a heterotetramer with FadA; similar to FadI2J2 complex; functions in beta-oxidation of fatty acids; multifunctional fatty acid oxidation complex subunit alpha 3739746..3741935 Shigella flexneri 5 str. 8401 4207982 YP_690985.1 CDS fadA NC_008258.1 3741945 3743108 D 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 3741945..3743108 Shigella flexneri 5 str. 8401 4207983 YP_690986.1 CDS fre NC_008258.1 3743300 3744034 R 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 complement(3743300..3744034) Shigella flexneri 5 str. 8401 4207984 YP_690987.1 CDS yigC NC_008258.1 3744047 3745540 R catalyzes the decarboxylation of 3-octaprenyl-4-hydroxy benzoate to 2-octaprenylphenol; 3-octaprenyl-4-hydroxybenzoate carboxy-lyase complement(3744047..3745540) Shigella flexneri 5 str. 8401 4207985 YP_690988.1 CDS rfaH NC_008258.1 3745707 3746195 D Code: K; COG: COG0250; transcriptional activator RfaH 3745707..3746195 Shigella flexneri 5 str. 8401 4207986 YP_690989.1 CDS tatD NC_008258.1 3746192 3746974 R magnesium dependent; not involved in the Sec-independent protein export system; DNase TatD complement(3746192..3746974) Shigella flexneri 5 str. 8401 4207987 YP_690990.1 CDS yigU NC_008258.1 3747016 3747792 R 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 complement(3747016..3747792) Shigella flexneri 5 str. 8401 4207988 YP_690991.1 CDS SFV_3661 NC_008258.1 3747795 3748310 R mediates the export of protein precursors bearing twin-arginine signal peptides; sec-independent translocase complement(3747795..3748310) Shigella flexneri 5 str. 8401 4207989 YP_690992.1 CDS tatA NC_008258.1 3748314 3748625 R 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 translocation protein TatA complement(3748314..3748625) Shigella flexneri 5 str. 8401 4207990 YP_690993.1 CDS ubiB NC_008258.1 3748662 3750302 R 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 complement(3748662..3750302) Shigella flexneri 5 str. 8401 4207991 YP_690994.1 CDS yigP NC_008258.1 3750299 3750904 R Code: S; COG: COG3165; hypothetical protein complement(3750299..3750904) Shigella flexneri 5 str. 8401 4207992 YP_690995.1 CDS ubiE NC_008258.1 3750918 3751673 R Catalyzes the carbon methylation reaction in the biosynthesis of ubiquinone; ubiquinone/menaquinone biosynthesis methyltransferase complement(3750918..3751673) Shigella flexneri 5 str. 8401 4207993 YP_690996.1 CDS yigN NC_008258.1 3751768 3753195 R 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 complement(3751768..3753195) Shigella flexneri 5 str. 8401 4207994 YP_690997.1 CDS udp NC_008258.1 3753336 3754097 R 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 complement(3753336..3754097) Shigella flexneri 5 str. 8401 4207995 YP_690998.1 CDS ysgA NC_008258.1 3754482 3755174 D Code: Q; COG: COG0412; hydrolase 3754482..3755174 Shigella flexneri 5 str. 8401 4207996 YP_690999.1 CDS metE NC_008258.1 3755213 3757474 R catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine to form methionine; 5-methyltetrahydropteroyltriglutamate-- homocysteine S-methyltransferase complement(3755213..3757474) Shigella flexneri 5 str. 8401 4207907 YP_691000.1 CDS metR NC_008258.1 3757710 3758663 D Code: K; COG: COG0583; regulator for metE and metH 3757710..3758663 Shigella flexneri 5 str. 8401 4207908 YP_691001.1 CDS yigM NC_008258.1 3758551 3759450 R Code: GER; COG: COG0697; hypothetical protein complement(3758551..3759450) Shigella flexneri 5 str. 8401 4207909 YP_691002.1 CDS yigL NC_008258.1 3759526 3760389 R 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 complement(3759526..3760389) Shigella flexneri 5 str. 8401 4207910 YP_691003.1 CDS pldB NC_008258.1 3760334 3761299 R lecithinase B; catalyzes the conversion of 1-lysophosphatidylcholine to glycerophosphocholine; can also hydrolyze 2-acyl glycerophosphoethanolamine and other substrates; lysophospholipase L2 complement(3760334..3761299) Shigella flexneri 5 str. 8401 4207911 YP_691004.1 CDS rhtB NC_008258.1 3761467 3762087 D Code: E; COG: COG1280; homoserine/homoserine lactone efflux protein 3761467..3762087 Shigella flexneri 5 str. 8401 4207912 YP_691005.1 CDS yigJ NC_008258.1 3762149 3762769 R Code: E; COG: COG1280; threonine efflux system complement(3762149..3762769) Shigella flexneri 5 str. 8401 4207913 YP_691006.1 CDS recQ NC_008258.1 3762833 3764662 R 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 complement(3762833..3764662) Shigella flexneri 5 str. 8401 4207914 YP_691007.1 CDS pldA NC_008258.1 3764795 3765664 R catalyzes the hydrolysis of phosphatidylcholine; phospholipase A complement(3764795..3765664) Shigella flexneri 5 str. 8401 4207915 YP_691008.1 CDS yigI NC_008258.1 3765811 3766296 D Code: Q; COG: COG2050; hypothetical protein 3765811..3766296 Shigella flexneri 5 str. 8401 4207916 YP_691009.1 CDS rarD NC_008258.1 3766348 3767238 D Code: R; COG: COG2962; hypothetical protein 3766348..3767238 Shigella flexneri 5 str. 8401 4207917 YP_691010.1 CDS yigG NC_008258.1 3767297 3767707 D hypothetical protein 3767297..3767707 Shigella flexneri 5 str. 8401 4207918 YP_691011.1 CDS yigF NC_008258.1 3767721 3768101 D hypothetical protein 3767721..3768101 Shigella flexneri 5 str. 8401 4207919 YP_691012.1 CDS corA NC_008258.1 3768142 3769092 R responsible for the influx of magnesium ions; magnesium/nickel/cobalt transporter CorA complement(3768142..3769092) Shigella flexneri 5 str. 8401 4207920 YP_691013.1 CDS yigE NC_008258.1 3769462 3769800 D hypothetical protein 3769462..3769800 Shigella flexneri 5 str. 8401 4207921 YP_691014.1 CDS SFV_3684 NC_008258.1 3769811 3771157 R Code: L; COG: COG3385; IS4 orf complement(3769811..3771157) Shigella flexneri 5 str. 8401 4207922 YP_691015.1 CDS SFV_3685 NC_008258.1 3771233 3771664 D hypothetical protein 3771233..3771664 Shigella flexneri 5 str. 8401 4207923 YP_691016.1 CDS uvrD NC_008258.1 3771812 3773974 R 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 complement(3771812..3773974) Shigella flexneri 5 str. 8401 4207924 YP_691017.1 CDS yigB NC_008258.1 3774058 3774774 R YigB; member of the haloacid dehalogenase (HAD)-like hydrolases superfamily of protein; unknown function; flavin mononucleotide phosphatase complement(3774058..3774774) Shigella flexneri 5 str. 8401 4207925 YP_691018.1 CDS xerC NC_008258.1 3774774 3775670 R 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 complement(3774774..3775670) Shigella flexneri 5 str. 8401 4210230 YP_691019.1 CDS yigA NC_008258.1 3775667 3776374 R Code: S; COG: COG3159; hypothetical protein complement(3775667..3776374) Shigella flexneri 5 str. 8401 4210231 YP_691020.1 CDS dapF NC_008258.1 3776371 3777195 R involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate; diaminopimelate epimerase complement(3776371..3777195) Shigella flexneri 5 str. 8401 4210232 YP_691021.1 CDS yifL NC_008258.1 3777232 3777435 R Code: N; COG: COG5567; outer membrane lipoprotein complement(3777232..3777435) Shigella flexneri 5 str. 8401 4210233 YP_691022.1 CDS SFV_3692 NC_008258.1 3777624 3778775 D hypothetical protein 3777624..3778775 Shigella flexneri 5 str. 8401 4210234 YP_691023.1 CDS SFV_3693 NC_008258.1 3778797 3779102 D hypothetical protein 3778797..3779102 Shigella flexneri 5 str. 8401 4210235 YP_691024.1 CDS SFV_3694 NC_008258.1 3779446 3780408 D hypothetical protein 3779446..3780408 Shigella flexneri 5 str. 8401 4210236 YP_691025.1 CDS cyaY NC_008258.1 3780456 3780776 D 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 3780456..3780776 Shigella flexneri 5 str. 8401 4210237 YP_691026.1 CDS cyaA NC_008258.1 3780816 3783362 R catalyzes transfer of adenylyl group of ATP from pyrophosphate to the 3'-hydroxyl group to form cyclic AMP; adenylate cyclase complement(3780816..3783362) Shigella flexneri 5 str. 8401 4210238 YP_691027.1 CDS hemC NC_008258.1 3783728 3784690 D transformation of porphobilinogen to hydroxymethylbilane in porphyrin biosynthesis; porphobilinogen deaminase 3783728..3784690 Shigella flexneri 5 str. 8401 4210239 YP_691028.1 CDS hemD NC_008258.1 3784687 3785427 D catalyzes the formation of uroporphyrinogen-III from hydroxymethylbilane; functions in tetrapyrrole and heme biosynthesis; uroporphyrinogen-III synthase 3784687..3785427 Shigella flexneri 5 str. 8401 4210240 YP_691029.1 CDS hemX NC_008258.1 3785449 3786666 D Code: H; COG: COG2959; uroporphyrinogen III C-methyltransferase 3785449..3786666 Shigella flexneri 5 str. 8401 4210241 YP_691030.1 CDS hemY NC_008258.1 3786669 3787865 D Code: H; COG: COG3071; protoheme IX biogenesis protein 3786669..3787865 Shigella flexneri 5 str. 8401 4210242 YP_691031.1 CDS SFV_3701 NC_008258.1 3788727 3789092 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 3788727..3789092 Shigella flexneri 5 str. 8401 4210243 YP_691032.1 CDS SFV_3702 NC_008258.1 3789116 3789955 D Code: L; COG: COG2801; IS2 ORF2 3789116..3789955 Shigella flexneri 5 str. 8401 4210244 YP_691033.1 CDS aslB NC_008258.1 3790125 3791360 R Code: R; COG: COG0641; arylsulfatase regulator complement(3790125..3791360) Shigella flexneri 5 str. 8401 4210245 YP_691034.1 CDS yifK NC_008258.1 3792046 3793431 R uncharacterized member of the amino acid-polyamine-organocation (APC) superfamily of amino acid transporters; unknown function; transport protein YifK complement(3792046..3793431) Shigella flexneri 5 str. 8401 4209121 YP_691035.1 CDS wecG NC_008258.1 3793622 3794362 R Code: M; COG: COG1922; UDP-N-acetyl-D-mannosaminuronic acid transferase complement(3793622..3794362) Shigella flexneri 5 str. 8401 4209122 YP_691036.1 CDS wecF NC_008258.1 3794365 3795717 R enterobacterial common antigen polymerase; common antigen polymerase complement(3794365..3795717) Shigella flexneri 5 str. 8401 4209123 YP_691037.1 CDS yifM NC_008258.1 3795714 3796793 R catalyzes the synthesis of a lipid-linked intermediate involved in ECA synthesis; 4-alpha-L-fucosyltransferase complement(3795714..3796793) Shigella flexneri 5 str. 8401 4209124 YP_691038.1 CDS wzxE NC_008258.1 3796790 3798040 R Code: R; COG: COG2244; cytochrome complement(3796790..3798040) Shigella flexneri 5 str. 8401 4209125 YP_691039.1 CDS wecE NC_008258.1 3798042 3799172 R 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 complement(3798042..3799172) Shigella flexneri 5 str. 8401 4209126 YP_691040.1 CDS wecD NC_008258.1 3799177 3799851 R Code: KR; COG: COG0454; TDP-fucosamine acetyltransferase complement(3799177..3799851) Shigella flexneri 5 str. 8401 4209127 YP_691041.1 CDS rffH NC_008258.1 3799829 3800710 R Code: M; COG: COG1209; glucose-1-phosphate thymidylyltransferase complement(3799829..3800710) Shigella flexneri 5 str. 8401 4209128 YP_691042.1 CDS rffG NC_008258.1 3800729 3801796 R Code: M; COG: COG1088; dTDP-glucose 4,6-dehydratase complement(3800729..3801796) Shigella flexneri 5 str. 8401 4209129 YP_691043.1 CDS wecC NC_008258.1 3801796 3803058 R catalyzes the oxidation of UDP-N-acetyl-D-mannosamine to UDP-N-acetylmannosaminuronic acid; UDP-N-acetyl-D-mannosamine dehydrogenase complement(3801796..3803058) Shigella flexneri 5 str. 8401 4209130 YP_691044.1 CDS wecB NC_008258.1 3803055 3804185 R Code: M; COG: COG0381; UDP-N-acetyl glucosamine-2-epimerase complement(3803055..3804185) Shigella flexneri 5 str. 8401 4209131 YP_691045.1 CDS wzzE NC_008258.1 3804241 3805287 R Enterobacterial Common Antigen (ECA) polysaccharide chain length modulation protein; lipopolysaccharide biosynthesis protein WzzE complement(3804241..3805287) Shigella flexneri 5 str. 8401 4209132 YP_691046.1 CDS rfe NC_008258.1 3805299 3806402 R Code: M; COG: COG0472; UDP-GlcNAc:undecaprenylphosphate GlcNAc-1-phosphate transferase complement(3805299..3806402) Shigella flexneri 5 str. 8401 4209133 YP_691047.1 CDS SFV_3721 NC_008258.1 3806414 3806632 R hypothetical protein complement(3806414..3806632) Shigella flexneri 5 str. 8401 4209134 YP_691048.1 CDS rho NC_008258.1 3806642 3807973 R An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes; transcription termination factor Rho complement(3806642..3807973) Shigella flexneri 5 str. 8401 4209135 YP_691049.1 CDS trxA NC_008258.1 3808228 3808662 R Code: OC; COG: COG0526; thioredoxin complement(3808228..3808662) Shigella flexneri 5 str. 8401 4211122 YP_691050.1 CDS rhlB NC_008258.1 3808688 3809953 D 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 3808688..3809953 Shigella flexneri 5 str. 8401 4211123 YP_691051.1 CDS gppA NC_008258.1 3810087 3811571 D 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 3810087..3811571 Shigella flexneri 5 str. 8401 4211124 YP_691052.1 CDS rep NC_008258.1 3811618 3813654 R single-stranded DNA-dependent ATPase; initiates unwinding at a nick in the DNA; involved in DNA replication; ATP-dependent DNA helicase Rep complement(3811618..3813654) Shigella flexneri 5 str. 8401 4211125 YP_691053.1 CDS ppiC NC_008258.1 3813726 3814007 D Code: O; COG: COG0760; peptidyl-prolyl cis-trans isomerase C 3813726..3814007 Shigella flexneri 5 str. 8401 4211126 YP_691054.1 CDS ilvC NC_008258.1 3814053 3815663 R 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 complement(3814053..3815663) Shigella flexneri 5 str. 8401 4211128 YP_691055.1 CDS ilvY NC_008258.1 3815609 3816568 D 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 3815609..3816568 Shigella flexneri 5 str. 8401 4211127 YP_691056.1 CDS ilvA NC_008258.1 3816565 3818109 R threonine deaminase; threonine dehydratase; in Escherichia coli, IlvA is part of the isoleucine biosynthetic pathway; threonine dehydratase complement(3816565..3818109) Shigella flexneri 5 str. 8401 4211129 YP_691057.1 CDS ilvD NC_008258.1 3818112 3819962 R catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis; dihydroxy-acid dehydratase complement(3818112..3819962) Shigella flexneri 5 str. 8401 4211130 YP_691058.2 CDS ilvE NC_008258.1 3820027 3820956 R catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids; branched-chain amino acid aminotransferase complement(3820027..3820956) Shigella flexneri 5 str. 8401 4211131 YP_691059.1 CDS ilvM NC_008258.1 3820976 3821239 R Code: S; COG: COG3978; acetolactate synthase 2 regulatory subunit complement(3820976..3821239) Shigella flexneri 5 str. 8401 4211132 YP_691060.1 CDS ilvG NC_008258.1 3821236 3822882 R catalyzes the formation of 2-acetolactate from pyruvate; also known as acetolactate synthase large subunit; acetolactate synthase 2 catalytic subunit complement(3821236..3822882) Shigella flexneri 5 str. 8401 4211133 YP_691061.1 CDS yifB NC_008258.1 3823471 3824991 D among the AAA+ ATPases, the YifB protease belongs to the Helix 2 insert clade; unknown function; ATP-dependent protease 3823471..3824991 Shigella flexneri 5 str. 8401 4211134 YP_691062.1 CDS yifE NC_008258.1 3825016 3825354 R Code: S; COG: COG3085; hypothetical protein complement(3825016..3825354) Shigella flexneri 5 str. 8401 4211135 YP_691063.1 CDS yifDA NC_008258.1 3825473 3826312 D Negatively regulates the transcription of the flagellar master operon flhDC by binding to the upstream region of the operon; transcriptional regulator HdfR 3825473..3826312 Shigella flexneri 5 str. 8401 4211136 YP_691064.1 CDS yieP NC_008258.1 3832116 3832808 D Code: K; COG: COG2186; hypothetical protein 3832116..3832808 Shigella flexneri 5 str. 8401 4206768 YP_691065.1 CDS yieO NC_008258.1 3832855 3834258 D Code: GEPR; COG: COG0477; transport protein 3832855..3834258 Shigella flexneri 5 str. 8401 4206769 YP_691066.1 CDS rbsR NC_008258.1 3834224 3835207 R DNA-binding transcriptional repressor of ribose metabolism; transcriptional repressor RbsR complement(3834224..3835207) Shigella flexneri 5 str. 8401 4206770 YP_691067.1 CDS rbsK NC_008258.1 3835220 3836164 R catalyzes the formation of D-ribose 5-phosphate from ribose; ribokinase complement(3835220..3836164) Shigella flexneri 5 str. 8401 4206771 YP_691068.1 CDS rbsC NC_008258.1 3837186 3838151 R functions to transport ribose at high affinity; forms a complex with RbsA2C2B; ribose ABC transporter permease complement(3837186..3838151) Shigella flexneri 5 str. 8401 4206773 YP_691069.1 CDS insB NC_008258.1 3839333 3839836 R Code: L; COG: COG1662; IS1 ORF2 complement(3839333..3839836) Shigella flexneri 5 str. 8401 4206774 YP_691070.1 CDS rbsD NC_008258.1 3840445 3840864 R 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 complement(3840445..3840864) Shigella flexneri 5 str. 8401 4206776 YP_691071.1 CDS trkD NC_008258.1 3841031 3842899 R 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 complement(3841031..3842899) Shigella flexneri 5 str. 8401 4206777 YP_691072.1 CDS SFV_3754 NC_008258.1 3843057 3844403 R Code: L; COG: COG3385; IS4 orf complement(3843057..3844403) Shigella flexneri 5 str. 8401 4206778 YP_691073.1 CDS glmS NC_008258.1 3844506 3846335 R Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source; glucosamine--fructose-6-phosphate aminotransferase complement(3844506..3846335) Shigella flexneri 5 str. 8401 4206779 YP_691074.1 CDS glmU NC_008258.1 3846497 3847867 R 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 complement(3846497..3847867) Shigella flexneri 5 str. 8401 4207760 YP_691075.1 CDS atpC NC_008258.1 3848219 3848638 R 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; ATP synthase F0F1 subunit epsilon complement(3848219..3848638) Shigella flexneri 5 str. 8401 4207761 YP_691076.1 CDS atpD NC_008258.1 3848659 3850041 R Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit; ATP synthase F0F1 subunit beta complement(3848659..3850041) Shigella flexneri 5 str. 8401 4207762 YP_691077.1 CDS atpG NC_008258.1 3850068 3850931 R Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit; ATP synthase F0F1 subunit gamma complement(3850068..3850931) Shigella flexneri 5 str. 8401 4207763 YP_691078.1 CDS atpA NC_008258.1 3850982 3852523 R produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit; ATP synthase F0F1 subunit alpha complement(3850982..3852523) Shigella flexneri 5 str. 8401 4207764 YP_691079.1 CDS atpH NC_008258.1 3852536 3853069 R 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; ATP synthase F0F1 subunit delta complement(3852536..3853069) Shigella flexneri 5 str. 8401 4207765 YP_691080.1 CDS atpF NC_008258.1 3853084 3853554 R Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B is part of the membrane proton channel.; ATP synthase F0F1 subunit B complement(3853084..3853554) Shigella flexneri 5 str. 8401 4207766 YP_691081.1 CDS atpE NC_008258.1 3853616 3853855 R Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit C is part of the membrane proton channel F0; ATP synthase F0F1 subunit C complement(3853616..3853855) Shigella flexneri 5 str. 8401 4207767 YP_691082.1 CDS atpB NC_008258.1 3853902 3854717 R Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit A is part of the membrane proton channel F0; ATP synthase F0F1 subunit A complement(3853902..3854717) Shigella flexneri 5 str. 8401 4207768 YP_691083.1 CDS atpI NC_008258.1 3854726 3855106 R 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 complement(3854726..3855106) Shigella flexneri 5 str. 8401 4207769 YP_691084.1 CDS gidB NC_008258.1 3855723 3856346 R glucose-inhibited division protein B; SAM-dependent methyltransferase; methylates the N7 position of guanosine in position 527 of 16S rRNA; 16S rRNA methyltransferase GidB complement(3855723..3856346) Shigella flexneri 5 str. 8401 4207770 YP_691085.1 CDS gidA NC_008258.1 3856410 3858218 R 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 enzyme GidA complement(3856410..3858218) Shigella flexneri 5 str. 8401 4207771 YP_691086.1 CDS mioC NC_008258.1 3858678 3859121 R An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic group; flavodoxin complement(3858678..3859121) Shigella flexneri 5 str. 8401 4207772 YP_691087.1 CDS asnC NC_008258.1 3859211 3859669 R transcriptional repressor of asnA which codes for aspartate-ammonia ligase; DNA-binding transcriptional regulator AsnC complement(3859211..3859669) Shigella flexneri 5 str. 8401 4207773 YP_691088.1 CDS asnA NC_008258.1 3859821 3860813 D catalyzes the formation of asparagine from aspartate and ammonia; asparagine synthetase AsnA 3859821..3860813 Shigella flexneri 5 str. 8401 4207774 YP_691089.1 CDS yieM NC_008258.1 3860818 3862269 R contains a von Willibrand factor type A domain; stimulates the ATPase activity of RavA; hypothetical protein complement(3860818..3862269) Shigella flexneri 5 str. 8401 4207775 YP_691090.2 CDS yieN NC_008258.1 3862263 3863759 R interacts with LdcI, lysine decarboxylase; may be active in late log/ early stationary phase; regulatory ATPase RavA complement(3862263..3863759) Shigella flexneri 5 str. 8401 4207776 YP_691091.1 CDS SFV_3773 NC_008258.1 3863914 3865260 D Code: L; COG: COG3385; IS4 orf 3863914..3865260 Shigella flexneri 5 str. 8401 4207777 YP_691092.1 CDS lpfA NC_008258.1 3865552 3866124 D Code: NU; COG: COG3539; major fimbrial subunit 3865552..3866124 Shigella flexneri 5 str. 8401 4207778 YP_691093.2 CDS SFV_3775 NC_008258.1 3866890 3867795 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(3866890..3867795) Shigella flexneri 5 str. 8401 4207779 YP_691094.1 CDS SFV_3776 NC_008258.1 3867753 3868118 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(3867753..3868118) Shigella flexneri 5 str. 8401 4210463 YP_691095.1 CDS lpfC NC_008258.1 3868267 3870786 D Code: NU; COG: COG3188; long polar fimbriae 3868267..3870786 Shigella flexneri 5 str. 8401 4210464 YP_691096.1 CDS SFV_3778 NC_008258.1 3870797 3871870 D Code: NU; COG: COG3539; fimbrial protein 3870797..3871870 Shigella flexneri 5 str. 8401 4210465 YP_691097.1 CDS pstS NC_008258.1 3872118 3873158 D Code: P; COG: COG0226; phosphate ABC transporter periplasmic substrate-binding protein PstS 3872118..3873158 Shigella flexneri 5 str. 8401 4210466 YP_691098.1 CDS pstC NC_008258.1 3873245 3874204 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 3873245..3874204 Shigella flexneri 5 str. 8401 4210467 YP_691099.1 CDS pstA NC_008258.1 3874204 3875094 D Part of the ABC transporter complex PstABCS responsible for inorganic phosphate (Pi) uptake under Pi starvation conditions; phosphate transporter permease subunit PtsA 3874204..3875094 Shigella flexneri 5 str. 8401 4210468 YP_691100.1 CDS pstB NC_008258.1 3875186 3875959 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 3875186..3875959 Shigella flexneri 5 str. 8401 4210469 YP_691101.1 CDS phoU NC_008258.1 3875974 3876699 D regulates several genes involved in high affinity phosphate uptake; under conditions of high phosphate concentrations downregulates the PHO regulon; transcriptional regulator PhoU 3875974..3876699 Shigella flexneri 5 str. 8401 4210470 YP_691102.1 CDS bglG NC_008258.1 3876986 3877822 D positive regulator of the beta-glucoside operon; transcriptional antiterminator; transcriptional antiterminator BglG 3876986..3877822 Shigella flexneri 5 str. 8401 4210471 YP_691103.1 CDS bglF NC_008258.1 3878019 3879833 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 beta-glucoside-specific transporter subunits IIABC 3878019..3879833 Shigella flexneri 5 str. 8401 4210472 YP_691104.1 CDS bglB NC_008258.1 3879852 3881246 D Code: G; COG: COG2723; phospho-beta-glucosidase B; cryptic 3879852..3881246 Shigella flexneri 5 str. 8401 4210473 YP_691105.1 CDS yieC NC_008258.1 3881332 3882948 D Code: G; COG: COG4580; receptor protein 3881332..3882948 Shigella flexneri 5 str. 8401 4210474 YP_691106.1 CDS yieL NC_008258.1 3883050 3884150 D Code: P; COG: COG2382; xylanase 3883050..3884150 Shigella flexneri 5 str. 8401 4210475 YP_691107.1 CDS yieK NC_008258.1 3884152 3884874 D Code: G; COG: COG0363; 6-phosphogluconolactonase 3884152..3884874 Shigella flexneri 5 str. 8401 4210476 YP_691108.1 CDS yieJ NC_008258.1 3884936 3885352 R Code: S; COG: COG3196; hypothetical protein complement(3884936..3885352) Shigella flexneri 5 str. 8401 4210477 YP_691109.1 CDS SFV_3791 NC_008258.1 3885527 3886333 R ISSfl4 ORF3 complement(3885527..3886333) Shigella flexneri 5 str. 8401 4210478 YP_691110.1 CDS SFV_3792 NC_008258.1 3886309 3886443 R ISSfl4 ORF3 complement(3886309..3886443) Shigella flexneri 5 str. 8401 4210479 YP_691111.1 CDS SFV_3793 NC_008258.1 3886463 3886810 R Code: L; COG: COG3436; ISSfl4 ORF2 complement(3886463..3886810) Shigella flexneri 5 str. 8401 4210480 YP_691112.1 CDS SFV_3794 NC_008258.1 3886807 3887481 R ISSfl4 ORF1 complement(3886807..3887481) Shigella flexneri 5 str. 8401 4210481 YP_691113.1 CDS yieI NC_008258.1 3887649 3888122 R might be involved in hypersensitivity to nitrofurzone; inner membrane protein complement(3887649..3888122) Shigella flexneri 5 str. 8401 4209692 YP_691114.1 CDS yieH NC_008258.1 3888189 3888845 R YieH; catalyzes the dephosphorylation of phosphoenolpyruvate, AMP and p-nitrophenyl phosphate; purine and pyrimidine nucleotides are secondary substrates; member of the haloacid dehalogenase-like hydrolases superfamily; 6-phosphogluconate phosphatase complement(3888189..3888845) Shigella flexneri 5 str. 8401 4209693 YP_691115.1 CDS yieG NC_008258.1 3889010 3890347 D Code: R; COG: COG2252; membrane / transport protein 3889010..3890347 Shigella flexneri 5 str. 8401 4209694 YP_691116.1 CDS yieF NC_008258.1 3890401 3890967 R Code: R; COG: COG0431; hypothetical protein complement(3890401..3890967) Shigella flexneri 5 str. 8401 4209695 YP_691117.1 CDS yieE NC_008258.1 3890989 3891738 R Code: H; COG: COG2091; hypothetical protein complement(3890989..3891738) Shigella flexneri 5 str. 8401 4209696 YP_691118.1 CDS SFV_3800 NC_008258.1 3892273 3892575 D Code: L; COG: COG2963; IS600 ORF1 3892273..3892575 Shigella flexneri 5 str. 8401 4209697 YP_691119.1 CDS SFV_3801 NC_008258.1 3892716 3893429 D Code: L; COG: COG2801; IS600 ORF2 3892716..3893429 Shigella flexneri 5 str. 8401 4209698 YP_691120.1 CDS SFV_3802 NC_008258.1 3893426 3894028 R LysR family transcriptional regulator complement(3893426..3894028) Shigella flexneri 5 str. 8401 4209699 YP_691121.1 CDS yidY NC_008258.1 3894096 3895271 R Confers resistance to chloramphenicol; multidrug efflux system protein MdtL complement(3894096..3895271) Shigella flexneri 5 str. 8401 4209700 YP_691122.1 CDS tnaB NC_008258.1 3895403 3896650 R tryptophan transporter of low affinity; tryptophan permease complement(3895403..3896650) Shigella flexneri 5 str. 8401 4209701 YP_691123.1 CDS tnaA NC_008258.1 3896741 3898156 R tryptophan indole-lyase; catalyzes the formation of indole and pyruvate from tryptophan; tryptophanase complement(3896741..3898156) Shigella flexneri 5 str. 8401 4209702 YP_691124.1 CDS trmE NC_008258.1 3898693 3900057 R 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(3898693..3900057) Shigella flexneri 5 str. 8401 4209703 YP_691125.1 CDS yidC NC_008258.1 3900163 3901758 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(3900163..3901758) Shigella flexneri 5 str. 8401 4209704 YP_691126.1 CDS rnpA NC_008258.1 3902033 3902359 R 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(3902033..3902359) Shigella flexneri 5 str. 8401 4209705 YP_691127.1 CDS rpmH NC_008258.1 3902409 3902549 R in Escherichia coli transcription of this gene is enhanced by polyamines; 50S ribosomal protein L34 complement(3902409..3902549) Shigella flexneri 5 str. 8401 4209706 YP_691128.1 CDS dnaA NC_008258.1 3903225 3904556 D Code: L; COG: COG0593; chromosome replication initiator DnaA 3903225..3904556 Shigella flexneri 5 str. 8401 4209707 YP_691129.1 CDS dnaN NC_008258.1 3904561 3905661 D binds the polymerase to DNA and acts as a sliding clamp; DNA polymerase III subunit beta 3904561..3905661 Shigella flexneri 5 str. 8401 4209708 YP_691130.1 CDS recF NC_008258.1 3905661 3906734 D Required for DNA replication; binds preferentially to single-stranded, linear DNA; recombination protein F 3905661..3906734 Shigella flexneri 5 str. 8401 4209709 YP_691131.1 CDS gyrB NC_008258.1 3906763 3909177 D negatively supercoils closed circular double-stranded DNA; DNA gyrase subunit B 3906763..3909177 Shigella flexneri 5 str. 8401 4209710 YP_691132.1 CDS yidB NC_008258.1 3909417 3909815 D Code: S; COG: COG3753; hypothetical protein 3909417..3909815 Shigella flexneri 5 str. 8401 4209711 YP_691133.1 CDS yidA NC_008258.1 3909929 3910741 D YidA; catalyzes the dephosphorylation of erythrose 4-phosphate (preferred substrate), mannose 1-phosphate and p-nitrophenyl phosphate; hydrolyzes the alpha-D-glucose-1-phosphate but not the beta form; member of the haloacid dehalogenase-like hydrolases superfamily and Cof family of proteins; sugar phosphatase 3909929..3910741 Shigella flexneri 5 str. 8401 4210327 YP_691134.2 CDS SFV_3816 NC_008258.1 3910787 3911443 R hypothetical protein complement(3910787..3911443) Shigella flexneri 5 str. 8401 4210328 YP_691135.1 CDS dgoK NC_008258.1 3912407 3913285 D Code: G; COG: COG3734; 2-oxo-3-deoxygalactonate kinase 3912407..3913285 Shigella flexneri 5 str. 8401 4210330 YP_691136.1 CDS dgoT NC_008258.1 3915124 3916443 D Code: GEPR; COG: COG0477; D-galactonate transport protein 3915124..3916443 Shigella flexneri 5 str. 8401 4210332 YP_691137.1 CDS yidS NC_008258.1 3916404 3917504 R FAD/NAD(P)-binding domain; oxidoreductase complement(3916404..3917504) Shigella flexneri 5 str. 8401 4210333 YP_691138.1 CDS yidR NC_008258.1 3917605 3918825 D hypothetical protein 3917605..3918825 Shigella flexneri 5 str. 8401 4210334 YP_691139.1 CDS yidQ NC_008258.1 3918827 3919234 R Code: R; COG: COG5645; hypothetical protein complement(3918827..3919234) Shigella flexneri 5 str. 8401 4210335 YP_691140.1 CDS ibpA NC_008258.1 3919464 3919877 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 3919464..3919877 Shigella flexneri 5 str. 8401 4210336 YP_691141.1 CDS ibpB NC_008258.1 3919989 3920417 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 3919989..3920417 Shigella flexneri 5 str. 8401 4210337 YP_691142.1 CDS yidE NC_008258.1 3920613 3922274 D Code: R; COG: COG2985; hypothetical protein 3920613..3922274 Shigella flexneri 5 str. 8401 4210338 YP_691143.1 CDS yidP NC_008258.1 3922313 3922987 R Code: K; COG: COG2188; transcriptional regulator complement(3922313..3922987) Shigella flexneri 5 str. 8401 4210339 YP_691144.1 CDS glvC NC_008258.1 3923075 3924895 D Code: G; COG: COG1263; phosphotransferase system IIBC component 3923075..3924895 Shigella flexneri 5 str. 8401 4210340 YP_691145.1 CDS yidL NC_008258.1 3925706 3926599 R Code: K; COG: COG2207; AraC family transcriptional regulator complement(3925706..3926599) Shigella flexneri 5 str. 8401 4210342 YP_691146.1 CDS yidK NC_008258.1 3926766 3928481 D uncharacterized member of the SSS superfamily of sodium-dependent solute transporters; unknown function; symporter YidK 3926766..3928481 Shigella flexneri 5 str. 8401 4210343 YP_691147.1 CDS yidJ NC_008258.1 3928516 3929958 D Code: P; COG: COG3119; sulfatase 3928516..3929958 Shigella flexneri 5 str. 8401 4210344 YP_691148.1 CDS yidI NC_008258.1 3930005 3930418 R hypothetical protein complement(3930005..3930418) Shigella flexneri 5 str. 8401 4210345 YP_691149.1 CDS yidH NC_008258.1 3930527 3930874 D Code: S; COG: COG2149; hypothetical protein 3930527..3930874 Shigella flexneri 5 str. 8401 4210307 YP_691150.1 CDS yidG NC_008258.1 3930864 3931226 D hypothetical protein 3930864..3931226 Shigella flexneri 5 str. 8401 4210308 YP_691151.1 CDS yidF NC_008258.1 3931223 3931720 D Code: R; COG: COG0641; transcriptional regulator 3931223..3931720 Shigella flexneri 5 str. 8401 4210309 YP_691152.1 CDS emrD NC_008258.1 3931728 3932918 R multidrug efflux protein involved in adaptation to low energy shock; multidrug resistance protein D complement(3931728..3932918) Shigella flexneri 5 str. 8401 4210310 YP_691153.1 CDS ilvB NC_008258.1 3934050 3935738 D Code: EH; COG: COG0028; acetolactate synthase catalytic subunit 3934050..3935738 Shigella flexneri 5 str. 8401 4210311 YP_691154.1 CDS ilvN NC_008258.1 3935742 3936032 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 3935742..3936032 Shigella flexneri 5 str. 8401 4210312 YP_691155.1 CDS uhpA NC_008258.1 3936107 3936697 D 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 3936107..3936697 Shigella flexneri 5 str. 8401 4210313 YP_691156.1 CDS uhpB NC_008258.1 3936694 3938199 D Member of the two-component regulatory system UhpB/UhpA involved in the regulation of the uptake of hexose ph; sensory histidine kinase UhpB 3936694..3938199 Shigella flexneri 5 str. 8401 4210314 YP_691157.1 CDS uhpC NC_008258.1 3938206 3939528 D membrane protein regulates uhpT expression; regulatory protein UhpC 3938206..3939528 Shigella flexneri 5 str. 8401 4210315 YP_691158.1 CDS uhpT NC_008258.1 3939666 3941057 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 3939666..3941057 Shigella flexneri 5 str. 8401 4210316 YP_691159.1 CDS yicP NC_008258.1 3941103 3942869 R 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(3941103..3942869) Shigella flexneri 5 str. 8401 4210317 YP_691160.1 CDS yicO NC_008258.1 3942966 3944378 D Code: R; COG: COG2252; hypothetical protein 3942966..3944378 Shigella flexneri 5 str. 8401 4210318 YP_691161.1 CDS yicN NC_008258.1 3944431 3944883 D hypothetical protein 3944431..3944883 Shigella flexneri 5 str. 8401 4210319 YP_691162.2 CDS nepI NC_008258.1 3945094 3946284 D experimental results in Escherichia coli suggest that this gene encodes an inosine export protein; member of major facilitator superfamily; MFS; ribonucleoside transporter 3945094..3946284 Shigella flexneri 5 str. 8401 4210320 YP_691163.1 CDS SFV_3848 NC_008258.1 3946873 3947175 D Code: L; COG: COG2963; IS600 ORF1 3946873..3947175 Shigella flexneri 5 str. 8401 4210321 YP_691164.1 CDS SFV_3849 NC_008258.1 3947316 3948029 D Code: L; COG: COG2801; IS600 ORF2 3947316..3948029 Shigella flexneri 5 str. 8401 4210322 YP_691165.1 CDS iutA NC_008258.1 3948286 3950484 R Code: P; COG: COG1629; ferric siderophore receptor complement(3948286..3950484) Shigella flexneri 5 str. 8401 4210323 YP_691166.1 CDS iucD NC_008258.1 3950487 3951824 R Code: Q; COG: COG3486; lysine:N6-hydroxylase complement(3950487..3951824) Shigella flexneri 5 str. 8401 4210324 YP_691167.1 CDS iucC NC_008258.1 3951821 3953563 R Code: Q; COG: COG4264; siderophore biosynthesis protein complement(3951821..3953563) Shigella flexneri 5 str. 8401 4210325 YP_691168.1 CDS iucB NC_008258.1 3953563 3954510 R Code: J; COG: COG1670; siderophore biosynthesis protein complement(3953563..3954510) Shigella flexneri 5 str. 8401 4210326 YP_691169.1 CDS iucA NC_008258.1 3954511 3956235 R siderophore biosynthesis protein complement(3954511..3956235) Shigella flexneri 5 str. 8401 4207099 YP_691170.1 CDS imm NC_008258.1 3956371 3957564 D Code: GEPR; COG: COG0477; membrane transport protein 3956371..3957564 Shigella flexneri 5 str. 8401 4207100 YP_691171.1 CDS shiE NC_008258.1 3957937 3958446 R hypothetical protein complement(3957937..3958446) Shigella flexneri 5 str. 8401 4207101 YP_691172.1 CDS insB NC_008258.1 3958560 3959063 D Code: L; COG: COG1662; IS1 ORF2 3958560..3959063 Shigella flexneri 5 str. 8401 4207102 YP_691173.1 CDS SFV_3858 NC_008258.1 3961535 3961900 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 3961535..3961900 Shigella flexneri 5 str. 8401 4207103 YP_691174.2 CDS SFV_3859 NC_008258.1 3961858 3962763 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 3961858..3962763 Shigella flexneri 5 str. 8401 4207104 YP_691175.1 CDS SFV_3860 NC_008258.1 3962738 3963193 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 3962738..3963193 Shigella flexneri 5 str. 8401 4207105 YP_691176.2 CDS SFV_3861 NC_008258.1 3963151 3964056 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 3963151..3964056 Shigella flexneri 5 str. 8401 4207106 YP_691177.1 CDS SFV_3862 NC_008258.1 3964826 3965152 D Code: L; COG: COG2963; IS629 ORF1 3964826..3965152 Shigella flexneri 5 str. 8401 4207107 YP_691178.1 CDS SFV_3863 NC_008258.1 3965388 3966035 D Code: L; COG: COG2801; IS629 ORF2 3965388..3966035 Shigella flexneri 5 str. 8401 4207108 YP_691179.1 CDS SFV_3864 NC_008258.1 3966106 3966363 R hypothetical protein complement(3966106..3966363) Shigella flexneri 5 str. 8401 4207109 YP_691180.1 CDS SFV_3865 NC_008258.1 3966825 3967124 D Code: L; COG: COG2963; IS3 ORF1 3966825..3967124 Shigella flexneri 5 str. 8401 4207110 YP_691181.1 CDS SFV_3866 NC_008258.1 3967121 3967513 D IS3 ORF2 3967121..3967513 Shigella flexneri 5 str. 8401 4207111 YP_691182.1 CDS SFV_3867 NC_008258.1 3967485 3967976 D IS3 ORF2 3967485..3967976 Shigella flexneri 5 str. 8401 4207112 YP_691183.1 CDS shiB NC_008258.1 3967973 3968434 R hypothetical protein complement(3967973..3968434) Shigella flexneri 5 str. 8401 4207113 YP_691184.1 CDS shiA NC_008258.1 3968949 3969992 R hypothetical protein complement(3968949..3969992) Shigella flexneri 5 str. 8401 4207114 YP_691185.1 CDS intC NC_008258.1 3970404 3971588 R Code: L; COG: COG0582; integrase complement(3970404..3971588) Shigella flexneri 5 str. 8401 4207115 YP_691186.1 CDS yicI NC_008258.1 3973761 3975986 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 YicI 3973761..3975986 Shigella flexneri 5 str. 8401 4210249 YP_691187.1 CDS yicH NC_008258.1 3976039 3977748 R hypothetical protein complement(3976039..3977748) Shigella flexneri 5 str. 8401 4210250 YP_691188.1 CDS yicE NC_008258.1 3977869 3979260 R Code: F; COG: COG2233; transport protein complement(3977869..3979260) Shigella flexneri 5 str. 8401 4210251 YP_691189.1 CDS gltS NC_008258.1 3979540 3980745 D Code: E; COG: COG0786; glutamate transport protein 3979540..3980745 Shigella flexneri 5 str. 8401 4210252 YP_691190.1 CDS recG NC_008258.1 3980779 3982860 R catalyzes branch migration in Holliday junction intermediates; ATP-dependent DNA helicase RecG complement(3980779..3982860) Shigella flexneri 5 str. 8401 4210253 YP_691191.1 CDS spoU NC_008258.1 3982866 3983555 R specifically modifies tRNA at position G18; tRNA guanosine-2'-O-methyltransferase complement(3982866..3983555) Shigella flexneri 5 str. 8401 4210254 YP_691192.1 CDS spoT NC_008258.1 3983562 3985670 R Code: TK; COG: COG0317; bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase complement(3983562..3985670) Shigella flexneri 5 str. 8401 4210255 YP_691193.1 CDS rpoZ NC_008258.1 3985689 3985964 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(3985689..3985964) Shigella flexneri 5 str. 8401 4210256 YP_691194.1 CDS gmk NC_008258.1 3986019 3986699 R Essential for recycling GMP and indirectly, cGMP; guanylate kinase complement(3986019..3986699) Shigella flexneri 5 str. 8401 4210257 YP_691195.1 CDS SFV_3882 NC_008258.1 3986776 3987039 D hypothetical protein 3986776..3987039 Shigella flexneri 5 str. 8401 4210258 YP_691196.1 CDS ligB NC_008258.1 3986894 3988582 D this ligase is similar to LigA but it lacks the C-terminal BRCT domain; catalyzes strand joining of nicked DNA in the presence of a divalent cation and NAD+; NAD-dependent DNA ligase LigB 3986894..3988582 Shigella flexneri 5 str. 8401 4210259 YP_691197.1 CDS yicG NC_008258.1 3988579 3989196 R Code: S; COG: COG2860; hypothetical protein complement(3988579..3989196) Shigella flexneri 5 str. 8401 4210260 YP_691198.1 CDS dinD NC_008258.1 3989487 3990323 R DNA-damage-inducible protein D complement(3989487..3990323) Shigella flexneri 5 str. 8401 4210261 YP_691199.1 CDS yicC NC_008258.1 3990533 3991396 R Code: S; COG: COG1561; hypothetical protein complement(3990533..3991396) Shigella flexneri 5 str. 8401 4210262 YP_691200.1 CDS rph NC_008258.1 3991523 3992239 D 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 3991523..3992239 Shigella flexneri 5 str. 8401 4210263 YP_691201.1 CDS pyrE NC_008258.1 3992305 3992946 D 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 3992305..3992946 Shigella flexneri 5 str. 8401 4210264 YP_691202.1 CDS slmA NC_008258.1 3992983 3993579 R 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 complement(3992983..3993579) Shigella flexneri 5 str. 8401 4210265 YP_691203.1 CDS dut NC_008258.1 3993686 3994141 R catalyzes the formation of dUMP from dUTP; deoxyuridine 5'-triphosphate nucleotidohydrolase complement(3993686..3994141) Shigella flexneri 5 str. 8401 4210266 YP_691204.1 CDS dfp NC_008258.1 3994122 3995342 R 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 complement(3994122..3995342) Shigella flexneri 5 str. 8401 4210267 YP_691205.1 CDS radC NC_008258.1 3995553 3996182 D 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 3995553..3996182 Shigella flexneri 5 str. 8401 4210597 YP_691206.1 CDS rpmG NC_008258.1 3996656 3996823 D 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 3996656..3996823 Shigella flexneri 5 str. 8401 4210598 YP_691207.1 CDS mutM NC_008258.1 3996921 3997730 D 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 3996921..3997730 Shigella flexneri 5 str. 8401 4210599 YP_691208.1 CDS coaD NC_008258.1 3997769 3998248 R Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA; phosphopantetheine adenylyltransferase complement(3997769..3998248) Shigella flexneri 5 str. 8401 4210600 YP_691209.1 CDS kdtA NC_008258.1 3998256 3999533 R catalyzes the transfer of 2-keto-3-deoxy-D-manno-octulosonic acid to lipid A; 3-deoxy-D-manno-octulosonic-acid transferase complement(3998256..3999533) Shigella flexneri 5 str. 8401 4210601 YP_691210.1 CDS SFV_3897 NC_008258.1 3999568 3999786 R IS1 encoded protein complement(3999568..3999786) Shigella flexneri 5 str. 8401 4210602 YP_691211.1 CDS insB NC_008258.1 3999861 4000364 D Code: L; COG: COG1662; IS1 ORF2 3999861..4000364 Shigella flexneri 5 str. 8401 4210603 YP_691212.1 CDS waaQ NC_008258.1 4000758 4001780 D Code: M; COG: COG0859; lipopolysaccharide core biosynthesis protein 4000758..4001780 Shigella flexneri 5 str. 8401 4210604 YP_691213.1 CDS waaG NC_008258.1 4001777 4002901 D Code: M; COG: COG0438; LPS alpha1,3-glucosyltransferase 4001777..4002901 Shigella flexneri 5 str. 8401 4210605 YP_691214.1 CDS waaP NC_008258.1 4002894 4003691 D lipopolysaccharide core biosynthesis protein 4002894..4003691 Shigella flexneri 5 str. 8401 4210606 YP_691215.1 CDS waaL NC_008258.1 4003734 4004741 D Code: M; COG: COG1442; Lipid A-core, surface polymer ligase 4003734..4004741 Shigella flexneri 5 str. 8401 4210607 YP_691216.1 CDS waaY NC_008258.1 4004767 4005474 D lipopolysaccharide core biosynthesis protein 4004767..4005474 Shigella flexneri 5 str. 8401 4210608 YP_691217.1 CDS waaJ NC_008258.1 4005499 4006512 D Code: M; COG: COG1442; lipopolysaccharide 1,2-glucosyltransferase 4005499..4006512 Shigella flexneri 5 str. 8401 4210609 YP_691218.1 CDS waaD NC_008258.1 4006521 4007663 D Code: M; COG: COG0438; lipopolysaccharide 1,2-N- acetylglucosaminetransferase 4006521..4007663 Shigella flexneri 5 str. 8401 4210610 YP_691219.1 CDS waaI NC_008258.1 4007699 4008907 R Code: M; COG: COG3307; lipid A-core, surface polymer ligase complement(4007699..4008907) Shigella flexneri 5 str. 8401 4210611 YP_691220.1 CDS waaC NC_008258.1 4008904 4009896 R Code: M; COG: COG0859; ADP-heptose:LPS heptosyl transferase I complement(4008904..4009896) Shigella flexneri 5 str. 8401 4210612 YP_691221.1 CDS waaF NC_008258.1 4009900 4010946 R catalyzes the transfer of the second heptose to the heptosyl-KDO2 moiety of the lipopolysaccharide inner core; ADP-heptose:LPS heptosyltransferase II complement(4009900..4010946) Shigella flexneri 5 str. 8401 4210613 YP_691222.1 CDS rfaD NC_008258.1 4010956 4011888 R 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 complement(4010956..4011888) Shigella flexneri 5 str. 8401 4210614 YP_691223.1 CDS htrL NC_008258.1 4012177 4013049 D involved in lipopolysaccharide biosynthesis; hypothetical protein 4012177..4013049 Shigella flexneri 5 str. 8401 4210615 YP_691224.1 CDS kbl NC_008258.1 4013324 4014520 D catalyzes the formation of 2-amino-3-oxobutanoate from acetyl-CoA and glycine; 2-amino-3-ketobutyrate CoA ligase 4013324..4014520 Shigella flexneri 5 str. 8401 4210577 YP_691225.1 CDS tdh NC_008258.1 4014530 4015555 D converts threonine and NAD to 1,2-amino-3-oxobutanoate and NADH; functions in threonine catabolism; L-threonine 3-dehydrogenase 4014530..4015555 Shigella flexneri 5 str. 8401 4210578 YP_691226.1 CDS yibD NC_008258.1 4015797 4016636 D Code: M; COG: COG0463; regulator 4015797..4016636 Shigella flexneri 5 str. 8401 4210579 YP_691227.1 CDS insB NC_008258.1 4016881 4017384 D Code: L; COG: COG1662; IS1 ORF2 4016881..4017384 Shigella flexneri 5 str. 8401 4210580 YP_691228.1 CDS yibQ NC_008258.1 4017592 4018416 R Code: S; COG: COG2861; hypothetical protein complement(4017592..4018416) Shigella flexneri 5 str. 8401 4210581 YP_691229.2 CDS yibP NC_008258.1 4018555 4019838 R Code: D; COG: COG4942; hypothetical protein complement(4018555..4019838) Shigella flexneri 5 str. 8401 4210582 YP_691230.2 CDS yibO NC_008258.1 4019848 4021392 R catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate; phosphoglyceromutase complement(4019848..4021392) Shigella flexneri 5 str. 8401 4210583 YP_691231.1 CDS insB NC_008258.1 4021526 4022029 R Code: L; COG: COG1662; IS1 ORF2 complement(4021526..4022029) Shigella flexneri 5 str. 8401 4210584 YP_691232.1 CDS SFV_3919 NC_008258.1 4022104 4022385 D IS1 encoded protein 4022104..4022385 Shigella flexneri 5 str. 8401 4210585 YP_691233.1 CDS yibN NC_008258.1 4022413 4022844 D Code: P; COG: COG0607; hypothetical protein 4022413..4022844 Shigella flexneri 5 str. 8401 4210586 YP_691234.1 CDS grxC NC_008258.1 4022986 4023237 D Code: O; COG: COG0695; glutaredoxin 3 4022986..4023237 Shigella flexneri 5 str. 8401 4210587 YP_691235.1 CDS secB NC_008258.1 4023300 4023767 D 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 4023300..4023767 Shigella flexneri 5 str. 8401 4210588 YP_691236.1 CDS gpsA NC_008258.1 4023767 4024786 D catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate; NAD(P)H-dependent glycerol-3-phosphate dehydrogenase 4023767..4024786 Shigella flexneri 5 str. 8401 4210589 YP_691237.1 CDS cysE NC_008258.1 4024866 4025687 D catalyzes the O-acetylation of serine; serine acetyltransferase 4024866..4025687 Shigella flexneri 5 str. 8401 4210590 YP_691238.1 CDS yibK NC_008258.1 4025740 4026213 R member of the SPOUT superfamily of RNA methyltransferases; no methyltransferase activity observed with certain tRNA substrates; tRNA/rRNA methyltransferase YibK complement(4025740..4026213) Shigella flexneri 5 str. 8401 4210591 YP_691239.1 CDS lldD NC_008258.1 4026409 4027599 R flavin mononucleotide-dependent dehydrogenase; functions in aerobic respiration and also has a role in anaerobic nitrate respiration; L-lactate dehydrogenase complement(4026409..4027599) Shigella flexneri 5 str. 8401 4210592 YP_691240.1 CDS lldR NC_008258.1 4027596 4028387 R represses the lctPRD operon; DNA-binding transcriptional repressor LldR complement(4027596..4028387) Shigella flexneri 5 str. 8401 4210593 YP_691241.1 CDS lldP NC_008258.1 4028372 4030027 R Code: C; COG: COG1620; L-lactate permease complement(4028372..4030027) Shigella flexneri 5 str. 8401 4210594 YP_691242.1 CDS SFV_3929 NC_008258.1 4030395 4033088 R Code: UW; COG: COG5295; hypothetical protein complement(4030395..4033088) Shigella flexneri 5 str. 8401 4210595 YP_691243.1 CDS SFV_3930 NC_008258.1 4033546 4034694 R adhesin complement(4033546..4034694) Shigella flexneri 5 str. 8401 4210596 YP_691244.1 CDS SFV_3931 NC_008258.1 4034738 4035421 R inner membrane lipoprotein complement(4034738..4035421) Shigella flexneri 5 str. 8401 4209959 YP_691245.1 CDS insB NC_008258.1 4035812 4036315 R Code: L; COG: COG1662; IS1 ORF2 complement(4035812..4036315) Shigella flexneri 5 str. 8401 4209960 YP_691246.1 CDS SFV_3933 NC_008258.1 4036390 4036656 D IS1 encoded protein 4036390..4036656 Shigella flexneri 5 str. 8401 4209961 YP_691247.1 CDS yibL NC_008258.1 4036742 4037104 R hypothetical protein complement(4036742..4037104) Shigella flexneri 5 str. 8401 4209962 YP_691248.1 CDS SFV_3935 NC_008258.1 4037388 4037597 D cytoplasmic protein 4037388..4037597 Shigella flexneri 5 str. 8401 4209963 YP_691249.1 CDS mtlR NC_008258.1 4037609 4038196 R Acts as a repressor of the mtlAD operon; mannitol repressor protein complement(4037609..4038196) Shigella flexneri 5 str. 8401 4209964 YP_691250.1 CDS mtlD NC_008258.1 4038196 4039518 R Code: G; COG: COG0246; mannitol-1-phosphate 5-dehydrogenase complement(4038196..4039518) Shigella flexneri 5 str. 8401 4209965 YP_691251.1 CDS mtlA NC_008258.1 4039439 4041352 R Code: G; COG: COG2213; PTS system mannitol-specific transporter subunit IIABC complement(4039439..4041352) Shigella flexneri 5 str. 8401 4209966 YP_691252.1 CDS yibI NC_008258.1 4041889 4042251 D hypothetical protein 4041889..4042251 Shigella flexneri 5 str. 8401 4209967 YP_691253.1 CDS yibH NC_008258.1 4042254 4043339 D Code: V; COG: COG1566; hypothetical protein 4042254..4043339 Shigella flexneri 5 str. 8401 4209968 YP_691254.1 CDS yibF NC_008258.1 4043410 4044018 D Code: O; COG: COG0625; glutathione S-transferase 4043410..4044018 Shigella flexneri 5 str. 8401 4209969 YP_691255.1 CDS selA NC_008258.1 4044116 4045507 D catalyzes the formation of selenocysteinyl-tRNA(Sec) from seryl-tRNA(Sec) and L-selenophosphate in selenoprotein biosynthesis; selenocysteine synthase 4044116..4045507 Shigella flexneri 5 str. 8401 4209970 YP_691256.1 CDS selB NC_008258.1 4045504 4047348 D Code: J; COG: COG3276; selenocysteinyl-tRNA-specific translation factor 4045504..4047348 Shigella flexneri 5 str. 8401 4209971 YP_691257.1 CDS yiaY NC_008258.1 4047538 4048689 D Code: C; COG: COG1454; alcohol dehydrogenase 4047538..4048689 Shigella flexneri 5 str. 8401 4209972 YP_691258.1 CDS aldB NC_008258.1 4048854 4050392 D Code: C; COG: COG1012; lactaldehyde dehydrogenase 4048854..4050392 Shigella flexneri 5 str. 8401 4209973 YP_691259.1 CDS SFV_3946 NC_008258.1 4050611 4050823 R hypothetical protein complement(4050611..4050823) Shigella flexneri 5 str. 8401 4209974 YP_691260.1 CDS yiaW NC_008258.1 4050907 4051260 D hypothetical protein 4050907..4051260 Shigella flexneri 5 str. 8401 4209975 YP_691261.1 CDS yiaV NC_008258.1 4051266 4052402 D Code: V; COG: COG1566; hypothetical protein 4051266..4052402 Shigella flexneri 5 str. 8401 4209976 YP_691262.1 CDS SFV_3949 NC_008258.1 4052399 4052713 R LysR family transcriptional regulator complement(4052399..4052713) Shigella flexneri 5 str. 8401 4209977 YP_691263.1 CDS SFV_3950 NC_008258.1 4052920 4053156 R IS1 encoded protein complement(4052920..4053156) Shigella flexneri 5 str. 8401 4210879 YP_691264.1 CDS insB NC_008258.1 4053231 4053734 D Code: L; COG: COG1662; IS1 ORF2 4053231..4053734 Shigella flexneri 5 str. 8401 4210880 YP_691265.1 CDS yiaT NC_008258.1 4054272 4055012 D Code: M; COG: COG3713; outer membrane protein 4054272..4055012 Shigella flexneri 5 str. 8401 4210881 YP_691266.1 CDS SFV_3953 NC_008258.1 4055133 4057112 R Code: S; COG: COG3533; hypothetical protein complement(4055133..4057112) Shigella flexneri 5 str. 8401 4210882 YP_691267.1 CDS SFV_3954 NC_008258.1 4057123 4058523 R Code: G; COG: COG2211; permease complement(4057123..4058523) Shigella flexneri 5 str. 8401 4210883 YP_691268.1 CDS SFV_3955 NC_008258.1 4058749 4059564 D Code: K; COG: COG2207; transcriptional regulator 4058749..4059564 Shigella flexneri 5 str. 8401 4210884 YP_691269.1 CDS sgbE NC_008258.1 4059596 4060291 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(4059596..4060291) Shigella flexneri 5 str. 8401 4210885 YP_691270.1 CDS sgbU NC_008258.1 4060285 4061178 R L-xylulose 5-phosphate 3-epimerase activity not yet demonstrated; may be involved in the utilization of 2,3-diketo-L-gulonate; L-xylulose 5-phosphate 3-epimerase complement(4060285..4061178) Shigella flexneri 5 str. 8401 4210886 YP_691271.1 CDS sgbH NC_008258.1 4061138 4061800 R catalyzes the formation of L-xylulose-5-phosphate from 3-keto-L-gulonate-6-phosphate; 3-keto-L-gulonate-6-phosphate decarboxylase complement(4061138..4061800) Shigella flexneri 5 str. 8401 4210887 YP_691272.1 CDS lyxK NC_008258.1 4061797 4063293 R Code: G; COG: COG1070; L-xylulose kinase, cryptic complement(4061797..4063293) Shigella flexneri 5 str. 8401 4210888 YP_691273.1 CDS yiaO NC_008258.1 4063297 4064283 R Code: G; COG: COG1638; solute-binding transport protein complement(4063297..4064283) Shigella flexneri 5 str. 8401 4210889 YP_691274.1 CDS yiaN NC_008258.1 4064296 4065573 R Code: G; COG: COG1593; hypothetical protein complement(4064296..4065573) Shigella flexneri 5 str. 8401 4210890 YP_691275.1 CDS yiaM NC_008258.1 4065576 4065878 R Code: G; COG: COG3090; hypothetical protein complement(4065576..4065878) Shigella flexneri 5 str. 8401 4210891 YP_691276.1 CDS insB NC_008258.1 4065908 4066411 R Code: L; COG: COG1662; IS1 ORF2 complement(4065908..4066411) Shigella flexneri 5 str. 8401 4210892 YP_691277.1 CDS SFV_3964 NC_008258.1 4066486 4066674 D IS1 encoded protein 4066486..4066674 Shigella flexneri 5 str. 8401 4210893 YP_691278.1 CDS yiaK NC_008258.1 4066820 4067812 R NAD(P)H-dependent; catalyzes the reduction of 2,3-diketo-L-gulonate to 3-keto-L-gulonate; 2,3-diketo-L-gulonate reductase complement(4066820..4067812) Shigella flexneri 5 str. 8401 4210894 YP_691279.1 CDS yiaJ NC_008258.1 4068049 4068861 D Code: K; COG: COG1414; regulator 4068049..4068861 Shigella flexneri 5 str. 8401 4210895 YP_691280.1 CDS yiaI NC_008258.1 4068963 4069436 D Code: C; COG: COG1142; hypothetical protein 4068963..4069436 Shigella flexneri 5 str. 8401 4210896 YP_691281.1 CDS avtA NC_008258.1 4069587 4070945 R 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 complement(4069587..4070945) Shigella flexneri 5 str. 8401 4210897 YP_691282.1 CDS malS NC_008258.1 4071018 4073048 R 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 complement(4071018..4073048) Shigella flexneri 5 str. 8401 4210898 YP_691283.1 CDS bax NC_008258.1 4073368 4074192 D Code: R; COG: COG2992; hypothetical protein 4073368..4074192 Shigella flexneri 5 str. 8401 4208517 YP_691284.1 CDS xylG NC_008258.1 4076715 4078256 R with XylFH is part of the high affinity xylose ABC transporter; xylose transporter ATP-binding subunit complement(4076715..4078256) Shigella flexneri 5 str. 8401 4208520 YP_691285.1 CDS xylF NC_008258.1 4078334 4079404 R periplasmic substrate-binding component of the ATP-dependent xylose transport system; high affinity; D-xylose transporter subunit XylF complement(4078334..4079404) Shigella flexneri 5 str. 8401 4208521 YP_691286.1 CDS xylB NC_008258.1 4081049 4082503 D Code: G; COG: COG1070; xylulokinase 4081049..4082503 Shigella flexneri 5 str. 8401 4208523 YP_691287.1 CDS yiaB NC_008258.1 4082672 4083013 D Code: S; COG: COG4682; hypothetical protein 4082672..4083013 Shigella flexneri 5 str. 8401 4208524 YP_691288.1 CDS yiaA NC_008258.1 4083059 4083496 D Code: S; COG: COG4682; hypothetical protein 4083059..4083496 Shigella flexneri 5 str. 8401 4208525 YP_691289.1 CDS yiaH NC_008258.1 4083538 4084533 R Code: S; COG: COG3274; hypothetical protein complement(4083538..4084533) Shigella flexneri 5 str. 8401 4208526 YP_691290.1 CDS SFV_3980 NC_008258.1 4084707 4085006 D lipoprotein 4084707..4085006 Shigella flexneri 5 str. 8401 4208527 YP_691291.1 CDS glyQ NC_008258.1 4085101 4086012 D 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 4085101..4086012 Shigella flexneri 5 str. 8401 4208528 YP_691292.1 CDS glyS NC_008258.1 4086022 4088091 D 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 4086022..4088091 Shigella flexneri 5 str. 8401 4208529 YP_691293.1 CDS insB NC_008258.1 4088149 4088652 R Code: L; COG: COG1662; IS1 ORF2 complement(4088149..4088652) Shigella flexneri 5 str. 8401 4208530 YP_691294.1 CDS SFV_3984 NC_008258.1 4088727 4088927 D IS1 encoded protein 4088727..4088927 Shigella flexneri 5 str. 8401 4208531 YP_691295.1 CDS SFV_3985 NC_008258.1 4089067 4089363 D hypothetical protein 4089067..4089363 Shigella flexneri 5 str. 8401 4208532 YP_691296.1 CDS yhiV NC_008258.1 4089388 4092501 D Code: V; COG: COG0841; transport system permease 4089388..4092501 Shigella flexneri 5 str. 8401 4208533 YP_691297.1 CDS yhiW NC_008258.1 4092864 4093592 R Code: K; COG: COG2207; AraC family transcriptional regulator complement(4092864..4093592) Shigella flexneri 5 str. 8401 4208534 YP_691298.1 CDS yhiX NC_008258.1 4093960 4094784 R regulates genes in response to acid and/or during stationary phase; DNA-binding transcriptional regulator GadX complement(4093960..4094784) Shigella flexneri 5 str. 8401 4208535 YP_691299.1 CDS gadA NC_008258.1 4095154 4096554 R Code: E; COG: COG0076; glutamate decarboxylase isozyme complement(4095154..4096554) Shigella flexneri 5 str. 8401 4210501 YP_691300.1 CDS yhjA NC_008258.1 4096765 4098162 R Code: P; COG: COG1858; cytochrome C peroxidase complement(4096765..4098162) Shigella flexneri 5 str. 8401 4210502 YP_691301.1 CDS insB NC_008258.1 4098221 4098724 R Code: L; COG: COG1662; IS1 ORF2 complement(4098221..4098724) Shigella flexneri 5 str. 8401 4210503 YP_691302.1 CDS SFV_3992 NC_008258.1 4098799 4098990 D IS1 encoded protein 4098799..4098990 Shigella flexneri 5 str. 8401 4210504 YP_691303.1 CDS yiiS NC_008258.1 4099227 4099526 D Code: S; COG: COG3691; hypothetical protein 4099227..4099526 Shigella flexneri 5 str. 8401 4210505 YP_691304.1 CDS yiiT NC_008258.1 4099553 4099981 D with UspC and Usp E is involved in resistance to UV radiation; universal stress protein UspD 4099553..4099981 Shigella flexneri 5 str. 8401 4210506 YP_691305.1 CDS fpr NC_008258.1 4099986 4100732 R Code: C; COG: COG1018; ferredoxin-NADP reductase complement(4099986..4100732) Shigella flexneri 5 str. 8401 4210507 YP_691306.1 CDS glpX NC_008258.1 4100829 4101839 R type II fructose 1,6-bisphosphatae; in Escherichia coli this protein forms a dimer and binds manganese; fructose 1,6-bisphosphatase II complement(4100829..4101839) Shigella flexneri 5 str. 8401 4210508 YP_691307.1 CDS glpK NC_008258.1 4102069 4103514 R Converts glycerol and ADP to glycerol-3-phosphate and ADP; glycerol kinase complement(4102069..4103514) Shigella flexneri 5 str. 8401 4210509 YP_691308.1 CDS glpF NC_008258.1 4103800 4104444 R Code: G; COG: COG0580; glycerol diffusion facilitator protein complement(4103800..4104444) Shigella flexneri 5 str. 8401 4210510 YP_691309.1 CDS yiiU NC_008258.1 4104876 4105115 D Code: S; COG: COG3074; hypothetical protein 4104876..4105115 Shigella flexneri 5 str. 8401 4210511 YP_691310.1 CDS menG NC_008258.1 4105200 4105685 R 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(4105200..4105685) Shigella flexneri 5 str. 8401 4210512 YP_691311.1 CDS menA NC_008258.1 4105778 4106704 R catalyzes the formation of dimethylmenaquinone from 1,4-dihydroxy-2-naphthoate and octaprenyl diphosphate; 1,4-dihydroxy-2-naphthoate octaprenyltransferase complement(4105778..4106704) Shigella flexneri 5 str. 8401 4210513 YP_691312.1 CDS hslU NC_008258.1 4106771 4108102 R heat shock protein involved in degradation of misfolded proteins; ATP-dependent protease ATP-binding subunit HslU complement(4106771..4108102) Shigella flexneri 5 str. 8401 4210514 YP_691313.1 CDS hslV NC_008258.1 4108112 4108642 R heat shock protein involved in degradation of misfolded proteins; ATP-dependent protease peptidase subunit complement(4108112..4108642) Shigella flexneri 5 str. 8401 4210515 YP_691314.1 CDS ftsN NC_008258.1 4108735 4109694 R Code: D; COG: COG3087; essential cell division protein FtsN complement(4108735..4109694) Shigella flexneri 5 str. 8401 4210516 YP_691315.1 CDS cytR NC_008258.1 4109786 4110748 R 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(4109786..4110748) Shigella flexneri 5 str. 8401 4210517 YP_691316.1 CDS priA NC_008258.1 4110864 4113062 R binding of PriA to forked DNA starts the assembly of the primosome, also possesses 3'-5' helicase activity; primosome assembly protein PriA complement(4110864..4113062) Shigella flexneri 5 str. 8401 4210518 YP_691317.1 CDS yiiX NC_008258.1 4113538 4114146 R member of the NlpC/P60 superfamily of peptidases; peptidoglycan peptidase complement(4113538..4114146) Shigella flexneri 5 str. 8401 4210519 YP_691318.1 CDS metJ NC_008258.1 4114330 4114692 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(4114330..4114692) Shigella flexneri 5 str. 8401 4210520 YP_691319.1 CDS metB NC_008258.1 4114780 4116084 D catalyzes the formation of cystathionine from L-cysteine and O-succinyl-L-homoserine; cystathionine gamma-synthase 4114780..4116084 Shigella flexneri 5 str. 8401 4210424 YP_691320.1 CDS metL NC_008258.1 4116087 4118519 D 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 4116087..4118519 Shigella flexneri 5 str. 8401 4210425 YP_691321.1 CDS metF NC_008258.1 4118868 4119758 D MTHFR; catalyzes NADH-linked reduction of 5,10-methylenetetrahydrofolate to 5-methyltetrahydrofolate using FAD as a cofactor; 5,10-methylenetetrahydrofolate reductase 4118868..4119758 Shigella flexneri 5 str. 8401 4210426 YP_691322.1 CDS katG NC_008258.1 4120087 4122267 D Code: P; COG: COG0376; catalase; hydroperoxidase HPI(I) 4120087..4122267 Shigella flexneri 5 str. 8401 4210427 YP_691323.1 CDS yijE NC_008258.1 4122328 4123266 D Code: GER; COG: COG0697; hypothetical protein 4122328..4123266 Shigella flexneri 5 str. 8401 4210428 YP_691324.1 CDS yijF NC_008258.1 4123293 4123910 R Code: S; COG: COG3738; hypothetical protein complement(4123293..4123910) Shigella flexneri 5 str. 8401 4210429 YP_691325.1 CDS frwC NC_008258.1 4128781 4129860 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 4128781..4129860 Shigella flexneri 5 str. 8401 4210433 YP_691326.1 CDS frwB NC_008258.1 4129875 4130195 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 EIIB 4129875..4130195 Shigella flexneri 5 str. 8401 4210434 YP_691327.1 CDS pflD NC_008258.1 4130246 4132543 D involved in production of D-lactate from glucose under microaerobic conditions; cytoplasmic protein; formate acetyltransferase 2 4130246..4132543 Shigella flexneri 5 str. 8401 4210435 YP_691328.1 CDS pflC NC_008258.1 4132509 4133387 D Code: O; COG: COG1180; pyruvate formate lyase II activase 4132509..4133387 Shigella flexneri 5 str. 8401 4210436 YP_691329.1 CDS frwD NC_008258.1 4133389 4133730 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 4133389..4133730 Shigella flexneri 5 str. 8401 4210437 YP_691330.1 CDS yijO NC_008258.1 4133717 4134568 R Code: K; COG: COG2207; AraC family transcriptional regulator complement(4133717..4134568) Shigella flexneri 5 str. 8401 4210438 YP_691331.1 CDS yijP NC_008258.1 4134717 4136450 R Code: R; COG: COG2194; hypothetical protein complement(4134717..4136450) Shigella flexneri 5 str. 8401 4210439 YP_691332.1 CDS ppc NC_008258.1 4136633 4139284 R catalyzes the formation of oxaloacetate from phosphoenolpyruvate; phosphoenolpyruvate carboxylase complement(4136633..4139284) Shigella flexneri 5 str. 8401 4210440 YP_691333.1 CDS argE NC_008258.1 4139636 4140787 R catalyzes the formation of L-ornithine from N(2)-acetyl-L-ornithine in arginine biosynthesis; acetylornithine deacetylase complement(4139636..4140787) Shigella flexneri 5 str. 8401 4210441 YP_691334.1 CDS argC NC_008258.1 4140941 4141945 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 4140941..4141945 Shigella flexneri 5 str. 8401 4210442 YP_691335.1 CDS argB NC_008258.1 4141920 4142729 D catalyzes the phosphorylation of N-acetyl-L-glutamate to form N-acetyl-L-glutamate 5-phosphate; acetylglutamate kinase 4141920..4142729 Shigella flexneri 5 str. 8401 4210521 YP_691336.1 CDS argH NC_008258.1 4142790 4144163 D catalyzes the formation of arginine from (N-L-arginino)succinate; argininosuccinate lyase 4142790..4144163 Shigella flexneri 5 str. 8401 4210522 YP_691337.1 CDS SFV_4030 NC_008258.1 4144347 4145693 D Code: L; COG: COG3385; IS4 orf 4144347..4145693 Shigella flexneri 5 str. 8401 4210523 YP_691338.1 CDS SFV_4031 NC_008258.1 4146101 4147315 D Code: MR; COG: COG4948; starvation-sensing protein 4146101..4147315 Shigella flexneri 5 str. 8401 4210524 YP_691339.1 CDS insB NC_008258.1 4147997 4148500 D Code: L; COG: COG1662; IS1 ORF2 4147997..4148500 Shigella flexneri 5 str. 8401 4210526 YP_691340.1 CDS oxyR NC_008258.1 4149696 4150613 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 4149696..4150613 Shigella flexneri 5 str. 8401 4210527 YP_691341.1 CDS udhA NC_008258.1 4150596 4151930 R catalyzes the conversion of NADPH to NADH; soluble pyridine nucleotide transhydrogenase complement(4150596..4151930) Shigella flexneri 5 str. 8401 4210528 YP_691342.1 CDS yijC NC_008258.1 4152104 4152967 D negatively controls the expression of fabA and fabB, genes involved in the unsaturated fatty acid biosynthesis; DNA-binding transcriptional repressor FabR 4152104..4152967 Shigella flexneri 5 str. 8401 4210529 YP_691343.1 CDS yijD NC_008258.1 4152967 4153326 D hypothetical protein 4152967..4153326 Shigella flexneri 5 str. 8401 4210530 YP_691344.1 CDS trmA NC_008258.1 4153366 4154466 R catalyzes the formation of 5-methyl-uridine at position 54 in all tRNAs; tRNA (uracil-5-)-methyltransferase complement(4153366..4154466) Shigella flexneri 5 str. 8401 4210531 YP_691345.2 CDS btuB NC_008258.1 4154835 4156679 D involved in the active translocation of vitamin B12 (cyanocobalamin) across the outer membrane to the periplasmic space; vitamin B12/cobalamin outer membrane transporter 4154835..4156679 Shigella flexneri 5 str. 8401 4210532 YP_691346.1 CDS murI NC_008258.1 4156624 4157481 D converts L-glutamate to D-glutamate, a component of peptidoglycan; glutamate racemase 4156624..4157481 Shigella flexneri 5 str. 8401 4210533 YP_691347.1 CDS murB NC_008258.1 4162994 4164022 D catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis; UDP-N-acetylenolpyruvoylglucosamine reductase 4162994..4164022 Shigella flexneri 5 str. 8401 4206937 YP_691348.1 CDS birA NC_008258.1 4164019 4164984 D catalyzes the formation of biotinyl-5'-AMP, also acts as a transcriptional repressor of the biotin operon; biotin--protein ligase 4164019..4164984 Shigella flexneri 5 str. 8401 4206938 YP_691349.1 CDS coaA NC_008258.1 4165013 4166119 R catalyzes the formation of (R)-4'-phosphopantothenate in coenzyme A biosynthesis; pantothenate kinase complement(4165013..4166119) Shigella flexneri 5 str. 8401 4206939 YP_691350.1 CDS tufB NC_008258.1 4166881 4168065 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 4166881..4168065 Shigella flexneri 5 str. 8401 4206944 YP_691351.1 CDS secE NC_008258.1 4168295 4168678 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 4168295..4168678 Shigella flexneri 5 str. 8401 4206945 YP_691352.1 CDS nusG NC_008258.1 4168680 4169225 D Modulates Rho-dependent transcription termination; transcription antitermination protein NusG 4168680..4169225 Shigella flexneri 5 str. 8401 4206946 YP_691353.1 CDS rplK NC_008258.1 4169384 4169812 D binds directly to 23S ribosomal RNA; 50S ribosomal protein L11 4169384..4169812 Shigella flexneri 5 str. 8401 4206947 YP_691354.1 CDS rplA NC_008258.1 4169816 4170520 D 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 4169816..4170520 Shigella flexneri 5 str. 8401 4206948 YP_691355.1 CDS rplJ NC_008258.1 4170933 4171430 D binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit; 50S ribosomal protein L10 4170933..4171430 Shigella flexneri 5 str. 8401 4206949 YP_691356.1 CDS rplL NC_008258.1 4171497 4171862 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 4171497..4171862 Shigella flexneri 5 str. 8401 4206950 YP_691357.1 CDS rpoB NC_008258.1 4172182 4176210 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 4172182..4176210 Shigella flexneri 5 str. 8401 4209193 YP_691358.1 CDS rpoC NC_008258.1 4176287 4180510 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' 4176287..4180510 Shigella flexneri 5 str. 8401 4209194 YP_691359.1 CDS thiH NC_008258.1 4180752 4181885 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(4180752..4181885) Shigella flexneri 5 str. 8401 4209195 YP_691360.2 CDS thiG NC_008258.1 4181882 4182652 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(4181882..4182652) Shigella flexneri 5 str. 8401 4209197 YP_691361.1 CDS thiS NC_008258.1 4182654 4182854 R with ThiF, ThiG, and ThiO catalyzes the formation of the thiazole moiety of thiamine pyrophosphate; sulfur carrier protein ThiS complement(4182654..4182854) Shigella flexneri 5 str. 8401 4209196 YP_691362.1 CDS thiF NC_008258.1 4182838 4183593 R Code: H; COG: COG0476; thiamine biosynthesis protein ThiF complement(4182838..4183593) Shigella flexneri 5 str. 8401 4209198 YP_691363.1 CDS thiE NC_008258.1 4183586 4184221 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(4183586..4184221) Shigella flexneri 5 str. 8401 4209199 YP_691364.1 CDS thiC NC_008258.1 4184221 4186116 R required for the synthesis of the hydromethylpyrimidine moiety of thiamine; thiamine biosynthesis protein ThiC complement(4184221..4186116) Shigella flexneri 5 str. 8401 4209200 YP_691365.1 CDS yjaE NC_008258.1 4186350 4186826 R binds specifically to the major sigma factor sigma 70; active in stationary phase; anti-RNA polymerase sigma 70 factor complement(4186350..4186826) Shigella flexneri 5 str. 8401 4209201 YP_691366.1 CDS nudC NC_008258.1 4186921 4187694 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 4186921..4187694 Shigella flexneri 5 str. 8401 4209202 YP_691367.1 CDS hemE NC_008258.1 4187734 4188798 D catalyzes the formation of coproporphyrinogen from uroporphyrinogen III; uroporphyrinogen decarboxylase 4187734..4188798 Shigella flexneri 5 str. 8401 4209203 YP_691368.1 CDS nfi NC_008258.1 4188955 4189626 D 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 4188955..4189626 Shigella flexneri 5 str. 8401 4209204 YP_691369.1 CDS yjaG NC_008258.1 4189669 4190259 D Code: S; COG: COG3068; hypothetical protein 4189669..4190259 Shigella flexneri 5 str. 8401 4209205 YP_691370.1 CDS hupA NC_008258.1 4190446 4190718 D histone-like DNA-binding protein; transcriptional regulator HU subunit alpha 4190446..4190718 Shigella flexneri 5 str. 8401 4209206 YP_691371.1 CDS yjaH NC_008258.1 4190791 4191426 D hypothetical protein 4190791..4191426 Shigella flexneri 5 str. 8401 4209207 YP_691372.1 CDS zraP NC_008258.1 4191428 4191994 R Code: UNTP; COG: COG3678; zinc resistance protein complement(4191428..4191994) Shigella flexneri 5 str. 8401 4209208 YP_691373.1 CDS hydH NC_008258.1 4192100 4193467 D Code: T; COG: COG0642; sensor protein ZraS 4192100..4193467 Shigella flexneri 5 str. 8401 4209209 YP_691374.1 CDS hydG NC_008258.1 4193464 4194789 D DNA-binding response regulator in two-component regulatory system with ZraS; response regulator/sigma54 interaction protein; transcriptional regulatory protein ZraR 4193464..4194789 Shigella flexneri 5 str. 8401 4209210 YP_691375.1 CDS purD NC_008258.1 4194786 4196075 R 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(4194786..4196075) Shigella flexneri 5 str. 8401 4209211 YP_691376.1 CDS purH NC_008258.1 4196087 4197676 R involved in de novo purine biosynthesis; bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase complement(4196087..4197676) Shigella flexneri 5 str. 8401 4209212 YP_691377.1 CDS yjaB NC_008258.1 4203419 4203862 R Code: KR; COG: COG0454; hypothetical protein complement(4203419..4203862) Shigella flexneri 5 str. 8401 4210922 YP_691378.1 CDS metA NC_008258.1 4204019 4204948 D catalyzes the formation of O-succinyl-L-homoserine from succinyl-CoA and L-homoserine in methionine biosynthesis; homoserine O-succinyltransferase 4204019..4204948 Shigella flexneri 5 str. 8401 4210923 YP_691379.1 CDS aceA NC_008258.1 4206845 4208149 D Code: C; COG: COG2224; isocitrate lyase 4206845..4208149 Shigella flexneri 5 str. 8401 4210925 YP_691380.1 CDS iclR NC_008258.1 4212540 4213364 R regulates the glyoxylate bypass operon (aceBAK), which encodes isocitrate lyase, malate synthase and isocitrate dehydrogenase kinase/phosphorylase; transcriptional repressor IclR complement(4212540..4213364) Shigella flexneri 5 str. 8401 4210928 YP_691381.1 CDS metH NC_008258.1 4213564 4217247 D 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 4213564..4217247 Shigella flexneri 5 str. 8401 4210929 YP_691382.1 CDS yjbB NC_008258.1 4217467 4219098 D Code: P; COG: COG1283; alpha helix protein 4217467..4219098 Shigella flexneri 5 str. 8401 4210930 YP_691383.1 CDS pepE NC_008258.1 4219189 4219878 R alpha-aspartyl dipeptidase; catalyzes the hydrolysis of dipeptides with an N-terminal aspartate residue; belongs to peptidase S51 family; peptidase E complement(4219189..4219878) Shigella flexneri 5 str. 8401 4210931 YP_691384.1 CDS sorE NC_008258.1 4220260 4221489 R Code: ER; COG: COG1063; L-sorbose-1-P-reductase complement(4220260..4221489) Shigella flexneri 5 str. 8401 4210932 YP_691385.1 CDS sorM NC_008258.1 4221541 4222329 R Code: G; COG: COG3716; sorbose-permease PTS system IID component complement(4221541..4222329) Shigella flexneri 5 str. 8401 4210953 YP_691386.1 CDS sorA NC_008258.1 4222340 4223137 R Code: G; COG: COG3715; sorbose-permease PTS system IIC component complement(4222340..4223137) Shigella flexneri 5 str. 8401 4210954 YP_691387.1 CDS sorB NC_008258.1 4223203 4223697 R Code: G; COG: COG3444; sorbose-permease PTS system IIB component complement(4223203..4223697) Shigella flexneri 5 str. 8401 4210955 YP_691388.1 CDS sorF NC_008258.1 4223697 4224104 R Code: G; COG: COG2893; sorbose-permease PTS system IIA component complement(4223697..4224104) Shigella flexneri 5 str. 8401 4210956 YP_691389.1 CDS sorD NC_008258.1 4224114 4224920 R Converts D-sorbitol-dphosphate to D-fructose-6-phosphate; sorbitol-6-phosphate 2-dehydrogenase complement(4224114..4224920) Shigella flexneri 5 str. 8401 4210957 YP_691390.1 CDS SFV_4099 NC_008258.1 4224990 4225937 R Code: K; COG: COG2390; sor-operon regulator complement(4224990..4225937) Shigella flexneri 5 str. 8401 4210958 YP_691391.1 CDS yjbC NC_008258.1 4226285 4227157 D catalyzes the synthesis of pseudouridine from U-2604 in the 23S ribosomal RNA; 23S rRNA pseudouridine synthase F 4226285..4227157 Shigella flexneri 5 str. 8401 4210959 YP_691392.1 CDS yjbD NC_008258.1 4227290 4227508 R hypothetical protein complement(4227290..4227508) Shigella flexneri 5 str. 8401 4210960 YP_691393.1 CDS SFV_4102 NC_008258.1 4227483 4227749 R IS2 ORF2 complement(4227483..4227749) Shigella flexneri 5 str. 8401 4210961 YP_691394.1 CDS SFV_4103 NC_008258.1 4227804 4228322 R IS2 ORF2 complement(4227804..4228322) Shigella flexneri 5 str. 8401 4210962 YP_691395.1 CDS SFV_4104 NC_008258.1 4228346 4228711 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(4228346..4228711) Shigella flexneri 5 str. 8401 4210963 YP_691396.1 CDS yjdH NC_008258.1 4229126 4230757 D C4-dicarboxylate-sensing histidine kinase; part of two-component regulatory system with DcuR; regulates anaerobic fumarate respiration; sensory histidine kinase DcuS 4229126..4230757 Shigella flexneri 5 str. 8401 4210964 YP_691397.1 CDS yjdG NC_008258.1 4230754 4231473 D 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 4230754..4231473 Shigella flexneri 5 str. 8401 4210965 YP_691398.1 CDS dcuB NC_008258.1 4232045 4233385 D 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 4232045..4233385 Shigella flexneri 5 str. 8401 4210966 YP_691399.1 CDS fumB NC_008258.1 4233463 4235109 D Code: C; COG: COG1951; fumarate hydratase class I, anaerobic 4233463..4235109 Shigella flexneri 5 str. 8401 4210967 YP_691400.1 CDS yjdF NC_008258.1 4235232 4235861 D Code: S; COG: COG3647; hypothetical protein 4235232..4235861 Shigella flexneri 5 str. 8401 4210968 YP_691401.1 CDS melB NC_008258.1 4236000 4237409 R Code: G; COG: COG2211; melibiose:sodium symporter complement(4236000..4237409) Shigella flexneri 5 str. 8401 4210969 YP_691402.1 CDS melA NC_008258.1 4237524 4238879 R Code: G; COG: COG1486; alpha-galactosidase complement(4237524..4238879) Shigella flexneri 5 str. 8401 4210970 YP_691403.1 CDS melR NC_008258.1 4239162 4240070 D Code: K; COG: COG2207; DNA-binding transcriptional regulator MelR 4239162..4240070 Shigella flexneri 5 str. 8401 4210971 YP_691404.1 CDS adiA NC_008258.1 4240269 4242536 D Code: E; COG: COG1982; biodegradative arginine decarboxylase 4240269..4242536 Shigella flexneri 5 str. 8401 4210972 YP_691405.1 CDS adiY NC_008258.1 4242861 4243622 D Code: K; COG: COG2207; AraC family transcriptional regulator 4242861..4243622 Shigella flexneri 5 str. 8401 4209978 YP_691406.1 CDS yjdE NC_008258.1 4243759 4245096 D Code: E; COG: COG0531; arginine:agmatin antiporter 4243759..4245096 Shigella flexneri 5 str. 8401 4209979 YP_691407.1 CDS yjdB NC_008258.1 4245251 4246843 D with ZipA and an unidentified 24 kDa protein forms a complex involved in cell division; cell division protein 4245251..4246843 Shigella flexneri 5 str. 8401 4209980 YP_691408.1 CDS basR NC_008258.1 4246840 4247508 D response regulator in two-component regulatory system with BasS; DNA-binding transcriptional regulator BasR 4246840..4247508 Shigella flexneri 5 str. 8401 4209981 YP_691409.1 CDS basS NC_008258.1 4247518 4248609 D Code: T; COG: COG0642; sensor protein BasS/PmrB 4247518..4248609 Shigella flexneri 5 str. 8401 4209982 YP_691410.1 CDS proP NC_008258.1 4248786 4250288 R Code: GEPR; COG: COG0477; proline/glycine betaine transporter complement(4248786..4250288) Shigella flexneri 5 str. 8401 4209983 YP_691411.1 CDS yjcZ NC_008258.1 4250552 4251430 R hypothetical protein complement(4250552..4251430) Shigella flexneri 5 str. 8401 4209984 YP_691412.1 CDS yjdA NC_008258.1 4251427 4253655 R hypothetical protein complement(4251427..4253655) Shigella flexneri 5 str. 8401 4209985 YP_691413.1 CDS phnA NC_008258.1 4253910 4254392 D Code: P; COG: COG2824; hypothetical protein 4253910..4254392 Shigella flexneri 5 str. 8401 4209986 YP_691414.1 CDS phnB NC_008258.1 4254550 4254993 D Code: S; COG: COG2764; hypothetical protein 4254550..4254993 Shigella flexneri 5 str. 8401 4209987 YP_691415.1 CDS phnC NC_008258.1 4255126 4255914 D Code: P; COG: COG3638; phosphonate/organophosphate ester transporter subunit 4255126..4255914 Shigella flexneri 5 str. 8401 4209988 YP_691416.1 CDS phnD NC_008258.1 4255939 4256955 D Code: P; COG: COG3221; periplasmic binding protein component of phosphonate transporter 4255939..4256955 Shigella flexneri 5 str. 8401 4209989 YP_691417.1 CDS phnE NC_008258.1 4257007 4257234 D membrane channel protein component of phosphonate transporter 4257007..4257234 Shigella flexneri 5 str. 8401 4209990 YP_691418.1 CDS insB NC_008258.1 4257228 4257731 R Code: L; COG: COG1662; IS1 ORF2 complement(4257228..4257731) Shigella flexneri 5 str. 8401 4209991 YP_691419.1 CDS SFV_4128 NC_008258.1 4257824 4258126 D IS1 encoded protein 4257824..4258126 Shigella flexneri 5 str. 8401 4209992 YP_691420.1 CDS yjcR NC_008258.1 4258152 4259123 D with MdtO and MdtP is involved in resistance to puromycin, acriflavine and tetraphenylarsonium chloride; multidrug resistance protein MdtN 4258152..4259123 Shigella flexneri 5 str. 8401 4209993 YP_691421.1 CDS yjcQ NC_008258.1 4259123 4261165 D 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 4259123..4261165 Shigella flexneri 5 str. 8401 4209994 YP_691422.1 CDS yjcP NC_008258.1 4261162 4262628 D part of a multidrug efflux system involved in resistance to acriflavin, puromycin, erytjhromycin and tetraphenylarsonium chloride; member of the outer membrane factor (OMF) family; outer membrane efflux protein MdtP 4261162..4262628 Shigella flexneri 5 str. 8401 4209995 YP_691423.1 CDS yjcO NC_008258.1 4265067 4265756 D Code: R; COG: COG0790; hypothetical protein 4265067..4265756 Shigella flexneri 5 str. 8401 4208282 YP_691424.1 CDS gltP NC_008258.1 4265834 4267147 R carrier protein part of the Na(+)-independent, binding-protein-independent glutamate-aspartate transport system; glutamate/aspartate:proton symporter complement(4265834..4267147) Shigella flexneri 5 str. 8401 4208283 YP_691425.1 CDS nrfG NC_008258.1 4267489 4268085 R Code: O; COG: COG4235; formate-dependent nitrite reductase complex subunit NrfG complement(4267489..4268085) Shigella flexneri 5 str. 8401 4208284 YP_691426.1 CDS nrfF NC_008258.1 4268082 4268465 R Code: O; COG: COG3088; formate-dependent nitrite reductase complex subunit NrfF complement(4268082..4268465) Shigella flexneri 5 str. 8401 4208285 YP_691427.1 CDS nrfE NC_008258.1 4268458 4270062 R with NrfF and NrfG catalyzes the insertion of heme into cytochrome c552; heme lyase subunit NrfE complement(4268458..4270062) Shigella flexneri 5 str. 8401 4208286 YP_691428.1 CDS nrfD NC_008258.1 4270196 4271152 R Code: P; COG: COG3301; formate-dependent nitrate reductase, transmembrane protein complement(4270196..4271152) Shigella flexneri 5 str. 8401 4208287 YP_691429.1 CDS nrfC NC_008258.1 4271149 4271820 R Code: C; COG: COG0437; formate-dependent nitrite reductase complement(4271149..4271820) Shigella flexneri 5 str. 8401 4208288 YP_691430.1 CDS nrfB NC_008258.1 4271817 4272383 R 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 complement(4271817..4272383) Shigella flexneri 5 str. 8401 4208289 YP_691431.1 CDS nrfA NC_008258.1 4272428 4273897 R catalyzes the formate-dependent reduction of nitrite to ammonia; cytochrome C552; cytochrome c552 complement(4272428..4273897) Shigella flexneri 5 str. 8401 4208290 YP_691432.1 CDS acs NC_008258.1 4274257 4276215 D Acs; catalyzes the conversion of acetate and CoA to acetyl-CoA; acetyl-CoA synthetase 4274257..4276215 Shigella flexneri 5 str. 8401 4208291 YP_691433.1 CDS yjcH NC_008258.1 4276415 4276729 D Code: S; COG: COG3162; hypothetical protein 4276415..4276729 Shigella flexneri 5 str. 8401 4208292 YP_691434.1 CDS actP NC_008258.1 4276837 4278375 D member of the sodium:solute symporter family; cotranscribed with the acs gene which encodes acetyl coenzyme A synthase; mutations affect acetate uptake; acetate permease 4276837..4278375 Shigella flexneri 5 str. 8401 4208293 YP_691435.1 CDS insB NC_008258.1 4278642 4279145 R Code: L; COG: COG1662; IS1 ORF2 complement(4278642..4279145) Shigella flexneri 5 str. 8401 4208294 YP_691436.1 CDS SFV_4146 NC_008258.1 4279220 4279429 D IS1 encoded protein 4279220..4279429 Shigella flexneri 5 str. 8401 4208295 YP_691437.1 CDS yjcE NC_008258.1 4279702 4281351 R Code: P; COG: COG0025; hypothetical protein complement(4279702..4281351) Shigella flexneri 5 str. 8401 4208296 YP_691438.1 CDS yjcD NC_008258.1 4281502 4282851 R Code: R; COG: COG2252; hypothetical protein complement(4281502..4282851) Shigella flexneri 5 str. 8401 4208297 YP_691439.1 CDS soxR NC_008258.1 4283557 4284021 R Code: K; COG: COG0789; redox-sensing activator of soxS complement(4283557..4284021) Shigella flexneri 5 str. 8401 4208298 YP_691440.1 CDS soxS NC_008258.1 4284107 4284430 D regulates genes involved in response to oxidative stress; DNA-binding transcriptional regulator SoxS 4284107..4284430 Shigella flexneri 5 str. 8401 4208299 YP_691441.1 CDS yjcC NC_008258.1 4284433 4286019 R Code: T; COG: COG4943; hypothetical protein complement(4284433..4286019) Shigella flexneri 5 str. 8401 4208300 YP_691442.1 CDS yjcB NC_008258.1 4286379 4286729 D hypothetical protein 4286379..4286729 Shigella flexneri 5 str. 8401 4208301 YP_691443.1 CDS insB NC_008258.1 4286993 4287496 D Code: L; COG: COG1662; IS1 ORF2 4286993..4287496 Shigella flexneri 5 str. 8401 4209673 YP_691444.1 CDS ssb NC_008258.1 4287604 4288140 R binds to single stranded DNA and PriA helcase facilitate replication restart; single-stranded DNA-binding protein complement(4287604..4288140) Shigella flexneri 5 str. 8401 4209674 YP_691445.1 CDS uvrA NC_008258.1 4288394 4291216 D 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 4288394..4291216 Shigella flexneri 5 str. 8401 4209675 YP_691446.1 CDS yjbR NC_008258.1 4291251 4291607 R Code: S; COG: COG2315; hypothetical protein complement(4291251..4291607) Shigella flexneri 5 str. 8401 4209676 YP_691447.1 CDS yjbQ NC_008258.1 4291611 4292027 R Code: S; COG: COG0432; hypothetical protein complement(4291611..4292027) Shigella flexneri 5 str. 8401 4209677 YP_691448.1 CDS aphA NC_008258.1 4292138 4293091 R Class B; non-specific; catalyzes the dephosphorylation of organic phosphomonoesters; also has phosphotransferase activity; acid phosphatase/phosphotransferase complement(4292138..4293091) Shigella flexneri 5 str. 8401 4209678 YP_691449.1 CDS tyrB NC_008258.1 4293960 4295153 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(4293960..4295153) Shigella flexneri 5 str. 8401 4209679 YP_691450.1 CDS alr NC_008258.1 4295406 4296485 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(4295406..4296485) Shigella flexneri 5 str. 8401 4209680 YP_691451.1 CDS dnaB NC_008258.1 4296538 4297845 R Code: L; COG: COG0305; replicative DNA helicase complement(4296538..4297845) Shigella flexneri 5 str. 8401 4209681 YP_691452.1 CDS qor NC_008258.1 4298036 4299019 D Code: CR; COG: COG0604; quinone oxidoreductase, NADPH-dependent 4298036..4299019 Shigella flexneri 5 str. 8401 4209682 YP_691453.1 CDS pspG NC_008258.1 4299185 4299637 R coordinately regulated along with pspA; PspF-dependent induction in response to secretin overexpression in Yersinia; phage shock protein G complement(4299185..4299637) Shigella flexneri 5 str. 8401 4209683 YP_691454.1 CDS yjbN NC_008258.1 4299561 4300604 R Code: J; COG: COG0042; tRNA-dihydrouridine synthase A complement(4299561..4300604) Shigella flexneri 5 str. 8401 4209684 YP_691455.1 CDS yjbM NC_008258.1 4300961 4301701 R hypothetical protein complement(4300961..4301701) Shigella flexneri 5 str. 8401 4209685 YP_691456.1 CDS yjbL NC_008258.1 4301692 4301946 R hypothetical protein complement(4301692..4301946) Shigella flexneri 5 str. 8401 4209686 YP_691457.1 CDS yjbK NC_008258.1 4302204 4302779 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 4302204..4302779 Shigella flexneri 5 str. 8401 4209687 YP_691458.1 CDS yjbJ NC_008258.1 4302821 4303030 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(4302821..4303030) Shigella flexneri 5 str. 8401 4209688 YP_691459.1 CDS dinF NC_008258.1 4303146 4304525 R Code: V; COG: COG0534; DNA-damage-inducible SOS response protein complement(4303146..4304525) Shigella flexneri 5 str. 8401 4209689 YP_691460.1 CDS lexA NC_008258.1 4304544 4305152 R Represses a number of genes involved in the response to DNA damage; LexA repressor complement(4304544..4305152) Shigella flexneri 5 str. 8401 4209690 YP_691461.1 CDS dgkA NC_008258.1 4305262 4305630 R Code: M; COG: COG0818; diacylglycerol kinase complement(4305262..4305630) Shigella flexneri 5 str. 8401 4209691 YP_691462.2 CDS plsB NC_008258.1 4305801 4308224 D PlsB; catalyzes the formation of 1-acyl-sn-glycerol 3-phosphate by transfering the acyl moiety from acyl-CoA; glycerol-3-phosphate acyltransferase 4305801..4308224 Shigella flexneri 5 str. 8401 4208071 YP_691463.1 CDS ubiA NC_008258.1 4308379 4309251 R catalyzes the conversion of 4-Hydroxybenzoate into 3-octaprenyl-4-hydroxybenzoate, as part of the ubiquinone biosynthesis pathway; 4-hydroxybenzoate octaprenyltransferase complement(4308379..4309251) Shigella flexneri 5 str. 8401 4208072 YP_691464.1 CDS ubiC NC_008258.1 4309264 4309872 R catalyzes the formation of 4-hydroxybenzoate from chorismate; chorismate pyruvate lyase complement(4309264..4309872) Shigella flexneri 5 str. 8401 4208073 YP_691465.1 CDS insB NC_008258.1 4309919 4310422 R Code: L; COG: COG1662; IS1 ORF2 complement(4309919..4310422) Shigella flexneri 5 str. 8401 4208074 YP_691466.1 CDS SFV_4176 NC_008258.1 4310497 4310691 D IS1 encoded protein 4310497..4310691 Shigella flexneri 5 str. 8401 4208075 YP_691467.1 CDS malM NC_008258.1 4310805 4311725 R maltose regulon periplasmic protein complement(4310805..4311725) Shigella flexneri 5 str. 8401 4208076 YP_691468.1 CDS lamB NC_008258.1 4311877 4313217 R porin involved in the transport of maltose and maltodextrins; maltoporin complement(4311877..4313217) Shigella flexneri 5 str. 8401 4208077 YP_691469.1 CDS malK NC_008258.1 4313289 4314404 R with malEFG is involved in import of maltose/maltodextrin; maltose ABC transporter ATP-binding protein complement(4313289..4314404) Shigella flexneri 5 str. 8401 4208078 YP_691470.1 CDS malE NC_008258.1 4314769 4315959 D functions in the MalKFGE ABC transporter complex to transport maltose into the cell by using ATP hydrolysis; maltose ABC transporter substrate-binding protein 4314769..4315959 Shigella flexneri 5 str. 8401 4208079 YP_691471.1 CDS malF NC_008258.1 4316021 4317565 D with MalKGE is involved in maltose transport into the cell; maltose transporter membrane protein 4316021..4317565 Shigella flexneri 5 str. 8401 4208080 YP_691472.1 CDS malG NC_008258.1 4317580 4318470 D with MalKFE is involved in the transport of maltose into the cell; maltose ABC transporter permease 4317580..4318470 Shigella flexneri 5 str. 8401 4208081 YP_691473.1 CDS yjbA NC_008258.1 4320362 4320772 R Code: S; COG: COG3223; phosphate-starvation-inducible protein PsiE complement(4320362..4320772) Shigella flexneri 5 str. 8401 4208083 YP_691474.1 CDS yjbH NC_008258.1 4321367 4323463 R hypothetical protein complement(4321367..4323463) Shigella flexneri 5 str. 8401 4208084 YP_691475.1 CDS yjbG NC_008258.1 4323579 4324220 R hypothetical protein complement(4323579..4324220) Shigella flexneri 5 str. 8401 4208085 YP_691476.1 CDS yjbF NC_008258.1 4324217 4324855 R hypothetical protein complement(4324217..4324855) Shigella flexneri 5 str. 8401 4208086 YP_691477.1 CDS pgi NC_008258.1 4325673 4327322 R 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 complement(4325673..4327322) Shigella flexneri 5 str. 8401 4208087 YP_691478.1 CDS lysC NC_008258.1 4327847 4329196 D catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP; functions in amino acid biosynthesis; lysine sensitive; aspartate kinase 4327847..4329196 Shigella flexneri 5 str. 8401 4208088 YP_691479.1 CDS SFV_4190 NC_008258.1 4329362 4330963 R Code: L; COG: COG3436; ISSfl4 ORF3 complement(4329362..4330963) Shigella flexneri 5 str. 8401 4208089 YP_691480.1 CDS SFV_4191 NC_008258.1 4330983 4331330 R Code: L; COG: COG3436; ISSfl4 ORF2 complement(4330983..4331330) Shigella flexneri 5 str. 8401 4208090 YP_691481.1 CDS SFV_4192 NC_008258.1 4331327 4332001 R ISSfl4 ORF1 complement(4331327..4332001) Shigella flexneri 5 str. 8401 4208836 YP_691482.1 CDS SFV_4193 NC_008258.1 4332161 4332526 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 4332161..4332526 Shigella flexneri 5 str. 8401 4208837 YP_691483.2 CDS SFV_4194 NC_008258.1 4332484 4333389 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 4332484..4333389 Shigella flexneri 5 str. 8401 4208838 YP_691484.1 CDS yjiI NC_008258.1 4333588 4334223 R in yeast cells this enzyme removes the 2'-phosphate from RNA via an intermediate in which the phosphate is ADP-ribosylated by NAD followed by a presumed transesterification to release the RNA and generate ADP-ribose 1''-2''-cyclic phosphate; functions in tRNA splicing; the function and substrate of bacterial enzymes in organisms that do not perform splicing is unknown; RNA 2'-phosphotransferase-like protein complement(4333588..4334223) Shigella flexneri 5 str. 8401 4208839 YP_691485.1 CDS yjiH NC_008258.1 4334422 4335105 D Code: S; COG: COG3314; hypothetical protein 4334422..4335105 Shigella flexneri 5 str. 8401 4208840 YP_691486.1 CDS yjiG NC_008258.1 4335102 4335563 D Code: S; COG: COG0700; hypothetical protein 4335102..4335563 Shigella flexneri 5 str. 8401 4208841 YP_691487.1 CDS iadA NC_008258.1 4335576 4336748 D isoaspartyl dipeptidase 4335576..4336748 Shigella flexneri 5 str. 8401 4208842 YP_691488.1 CDS yjiE NC_008258.1 4336813 4337724 D Code: K; COG: COG0583; DNA-binding transcriptional regulator 4336813..4337724 Shigella flexneri 5 str. 8401 4208843 YP_691489.1 CDS iraD NC_008258.1 4337717 4338106 R inhibitor of RssB activity in response to DNA damage; blocks degradation of stationary phase sigma factor RpoS; DNA replication/recombination/repair protein complement(4337717..4338106) Shigella flexneri 5 str. 8401 4208844 YP_691490.1 CDS yjiC NC_008258.1 4338782 4339612 D hypothetical protein 4338782..4339612 Shigella flexneri 5 str. 8401 4208845 YP_691491.1 CDS uxuR NC_008258.1 4339753 4340478 R regulates the expression of uxuBA; DNA-binding transcriptional repressor UxuR complement(4339753..4340478) Shigella flexneri 5 str. 8401 4208846 YP_691492.1 CDS uxuB NC_008258.1 4340741 4342201 R Code: G; COG: COG0246; D-mannonate oxidoreductase complement(4340741..4342201) Shigella flexneri 5 str. 8401 4208847 YP_691493.1 CDS uxuA NC_008258.1 4342282 4343466 R catalyzes the formation of 2-dehydro-3-deoxy-D-gluconate from mannonate; mannonate dehydratase complement(4342282..4343466) Shigella flexneri 5 str. 8401 4208848 YP_691494.1 CDS gntP NC_008258.1 4343806 4345149 D Code: GE; COG: COG2610; fructuronate transporter 4343806..4345149 Shigella flexneri 5 str. 8401 4208849 YP_691495.1 CDS fimH NC_008258.1 4345400 4346302 R FimH protein complement(4345400..4346302) Shigella flexneri 5 str. 8401 4208850 YP_691496.1 CDS fimG NC_008258.1 4346322 4346825 R Code: NU; COG: COG3539; minor fimbrial subunit complement(4346322..4346825) Shigella flexneri 5 str. 8401 4208851 YP_691497.1 CDS fimF NC_008258.1 4346838 4347368 R Code: NU; COG: COG3539; minor fimbrial subunit complement(4346838..4347368) Shigella flexneri 5 str. 8401 4208852 YP_691498.1 CDS fimD NC_008258.1 4347378 4350014 R Code: NU; COG: COG3188; Outer membrane usher protein fimD complement(4347378..4350014) Shigella flexneri 5 str. 8401 4208853 YP_691499.1 CDS fimC NC_008258.1 4350081 4350737 R Code: NU; COG: COG3121; periplasmic chaperone complement(4350081..4350737) Shigella flexneri 5 str. 8401 4208854 YP_691500.1 CDS insB NC_008258.1 4351653 4352156 D Code: L; COG: COG1662; IS1 ORF2 4351653..4352156 Shigella flexneri 5 str. 8401 4210899 YP_691501.1 CDS fimA NC_008258.1 4352224 4352772 R Code: NU; COG: COG3539; major type 1 subunit fimbrin (pilin) complement(4352224..4352772) Shigella flexneri 5 str. 8401 4210901 YP_691502.1 CDS fimE NC_008258.1 4353253 4353807 R inversion of on/off regulator of fimA; tyrosine recombinase complement(4353253..4353807) Shigella flexneri 5 str. 8401 4210902 YP_691503.1 CDS fimB NC_008258.1 4354444 4354929 R Code: L; COG: COG0582; recombinase; regulator for fimA complement(4354444..4354929) Shigella flexneri 5 str. 8401 4210903 YP_691504.1 CDS yjhA NC_008258.1 4356383 4357099 D hypothetical protein 4356383..4357099 Shigella flexneri 5 str. 8401 4210904 YP_691505.1 CDS yjhT NC_008258.1 4357011 4358225 D Code: S; COG: COG3055; N-acetylneuraminic acid mutarotase 4357011..4358225 Shigella flexneri 5 str. 8401 4210905 YP_691506.1 CDS yjhS NC_008258.1 4358290 4359270 D Code: L; COG: COG2801; hypothetical protein 4358290..4359270 Shigella flexneri 5 str. 8401 4210906 YP_691507.1 CDS insB NC_008258.1 4359739 4360242 R Code: L; COG: COG1662; IS1 ORF2 complement(4359739..4360242) Shigella flexneri 5 str. 8401 4210907 YP_691508.1 CDS SFV_4220 NC_008258.1 4360317 4360583 D IS1 encoded protein 4360317..4360583 Shigella flexneri 5 str. 8401 4210908 YP_691509.1 CDS SFV_4221 NC_008258.1 4360621 4361226 D Code: KG; COG: COG1349; DeoR family transcriptional regulator 4360621..4361226 Shigella flexneri 5 str. 8401 4210909 YP_691510.1 CDS SFV_4222 NC_008258.1 4361327 4361443 R hypothetical protein complement(4361327..4361443) Shigella flexneri 5 str. 8401 4210910 YP_691511.1 CDS SFV_4223 NC_008258.1 4361702 4361980 D Code: L; COG: COG2963; ISEhe3 orfA 4361702..4361980 Shigella flexneri 5 str. 8401 4210911 YP_691512.1 CDS SFV_4224 NC_008258.1 4362049 4362249 D IS600 ORF1 4362049..4362249 Shigella flexneri 5 str. 8401 4210912 YP_691513.1 CDS SFV_4225 NC_008258.1 4362117 4362419 R IS1 encoded protein complement(4362117..4362419) Shigella flexneri 5 str. 8401 4210913 YP_691514.1 CDS insB NC_008258.1 4362494 4362997 D Code: L; COG: COG1662; IS1 ORF2 4362494..4362997 Shigella flexneri 5 str. 8401 4210914 YP_691515.1 CDS SFV_4227 NC_008258.1 4363338 4364531 R Code: L; COG: COG0582; P4-type integrase complement(4363338..4364531) Shigella flexneri 5 str. 8401 4210915 YP_691516.1 CDS yjgB NC_008258.1 4365010 4366029 D Code: R; COG: COG1064; oxidoreductase 4365010..4366029 Shigella flexneri 5 str. 8401 4210917 YP_691517.1 CDS yjgR NC_008258.1 4366158 4367660 D Code: R; COG: COG0433; hypothetical protein 4366158..4367660 Shigella flexneri 5 str. 8401 4206899 YP_691518.1 CDS yjgQ NC_008258.1 4367779 4368861 R Code: R; COG: COG0795; hypothetical protein complement(4367779..4368861) Shigella flexneri 5 str. 8401 4206900 YP_691519.1 CDS yjgP NC_008258.1 4368861 4369898 R Code: R; COG: COG0795; hypothetical protein complement(4368861..4369898) Shigella flexneri 5 str. 8401 4206901 YP_691520.1 CDS pepA NC_008258.1 4370228 4371739 D catalyzes the removal of N-terminal amino acids preferably leucine from various peptides; leucyl aminopeptidase 4370228..4371739 Shigella flexneri 5 str. 8401 4206902 YP_691521.1 CDS holC NC_008258.1 4371873 4372316 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 4371873..4372316 Shigella flexneri 5 str. 8401 4206903 YP_691522.1 CDS valS NC_008258.1 4372316 4375171 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 4372316..4375171 Shigella flexneri 5 str. 8401 4206904 YP_691523.1 CDS yjgN NC_008258.1 4375225 4376421 R Code: S; COG: COG4269; hypothetical protein complement(4375225..4376421) Shigella flexneri 5 str. 8401 4206905 YP_691524.1 CDS SFV_4237 NC_008258.1 4376614 4377117 D Code: KR; COG: COG0454; hypothetical protein 4376614..4377117 Shigella flexneri 5 str. 8401 4206906 YP_691525.1 CDS yjgD NC_008258.1 4377163 4377579 R Code: S; COG: COG3076; hypothetical protein complement(4377163..4377579) Shigella flexneri 5 str. 8401 4206907 YP_691526.1 CDS argI NC_008258.1 4377741 4378754 D 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 4377741..4378754 Shigella flexneri 5 str. 8401 4206908 YP_691527.1 CDS SFV_4240 NC_008258.1 4378760 4378945 R IS1 encoded protein complement(4378760..4378945) Shigella flexneri 5 str. 8401 4206909 YP_691528.1 CDS insB NC_008258.1 4379020 4379523 D Code: L; COG: COG1662; IS1 ORF2 4379020..4379523 Shigella flexneri 5 str. 8401 4206910 YP_691529.1 CDS SFV_4242 NC_008258.1 4379534 4380262 R hypothetical protein complement(4379534..4380262) Shigella flexneri 5 str. 8401 4206911 YP_691530.1 CDS yjgK NC_008258.1 4380385 4380837 R Code: G; COG: COG2731; hypothetical protein complement(4380385..4380837) Shigella flexneri 5 str. 8401 4206912 YP_691531.1 CDS yjgJ NC_008258.1 4380982 4381575 R Code: K; COG: COG1309; hypothetical protein complement(4380982..4381575) Shigella flexneri 5 str. 8401 4206913 YP_691532.1 CDS yjgI NC_008258.1 4381646 4382359 D Code: IQR; COG: COG1028; oxidoreductase 4381646..4382359 Shigella flexneri 5 str. 8401 4206914 YP_691533.1 CDS yjgH NC_008258.1 4382407 4382886 D Code: J; COG: COG0251; hypothetical protein 4382407..4382886 Shigella flexneri 5 str. 8401 4206915 YP_691534.1 CDS pyrB NC_008258.1 4383305 4384240 D catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis; aspartate carbamoyltransferase 4383305..4384240 Shigella flexneri 5 str. 8401 4206916 YP_691535.1 CDS pyrI NC_008258.1 4384253 4384714 D involved in the allosteric regulation of aspartate carbamoyltransferase; aspartate carbamoyltransferase 4384253..4384714 Shigella flexneri 5 str. 8401 4206917 YP_691536.1 CDS yjgF NC_008258.1 4384787 4385173 D Code: J; COG: COG0251; hypothetical protein 4384787..4385173 Shigella flexneri 5 str. 8401 4210443 YP_691537.1 CDS mgtA NC_008258.1 4385379 4388075 R P-type ATPase involved in magnesium influx; magnesium-transporting ATPase MgtA complement(4385379..4388075) Shigella flexneri 5 str. 8401 4210444 YP_691538.1 CDS treR NC_008258.1 4388454 4389401 D regulates genes involved in trehalose metabolism; binds the intermediate trehalose-6-phosphate; binds a dimer; regulates treBC operon; trehalose repressor 4388454..4389401 Shigella flexneri 5 str. 8401 4210445 YP_691539.1 CDS treC NC_008258.1 4390844 4392646 D Code: G; COG: COG0366; trehalose-6-phosphate hydrolase 4390844..4392646 Shigella flexneri 5 str. 8401 4210446 YP_691540.1 CDS nrdD NC_008258.1 4393040 4395178 D Catalyzes the reduction of nucleoside 5'-triphosphates to 2'-deoxynucleoside 5'-triphosphates; anaerobic ribonucleoside triphosphate reductase 4393040..4395178 Shigella flexneri 5 str. 8401 4210447 YP_691541.1 CDS nrdG NC_008258.1 4395336 4395800 D activates anaerobic ribonucleoside-triphosphate reductase under anaerobic conditions; anaerobic ribonucleotide reductase-activating protein 4395336..4395800 Shigella flexneri 5 str. 8401 4210448 YP_691542.1 CDS cybC NC_008258.1 4395845 4396231 R Code: C; COG: COG3783; cytochrome b(562) complement(4395845..4396231) Shigella flexneri 5 str. 8401 4210449 YP_691543.1 CDS pmbA NC_008258.1 4396414 4397685 R protease involved in proteolytic processing of the antibiotic Microcin B17 and in sensitivity to the DNA gyrase inhibitor LetD; peptidase PmbA complement(4396414..4397685) Shigella flexneri 5 str. 8401 4210450 YP_691544.1 CDS yjgA NC_008258.1 4397860 4398411 D Code: S; COG: COG3028; hypothetical protein 4397860..4398411 Shigella flexneri 5 str. 8401 4210451 YP_691545.1 CDS yjfG NC_008258.1 4398494 4399816 R Code: M; COG: COG0773; ligase complement(4398494..4399816) Shigella flexneri 5 str. 8401 4210452 YP_691546.1 CDS fbp NC_008258.1 4400043 4401041 D catalyzes the formation of D-fructose 6-phosphate from fructose-1,6-bisphosphate; fructose-1,6-bisphosphatase 4400043..4401041 Shigella flexneri 5 str. 8401 4210453 YP_691547.1 CDS SFV_4260 NC_008258.1 4401079 4402425 R Code: L; COG: COG3385; IS4 orf complement(4401079..4402425) Shigella flexneri 5 str. 8401 4210454 YP_691548.1 CDS yjfF NC_008258.1 4402635 4403507 R membrane component of a sugar ABC transporter system; ABC transporter permease complement(4402635..4403507) Shigella flexneri 5 str. 8401 4210455 YP_691549.1 CDS ytfT NC_008258.1 4403494 4404516 R Code: G; COG: COG1172; transport system permease complement(4403494..4404516) Shigella flexneri 5 str. 8401 4210456 YP_691550.1 CDS ytfR NC_008258.1 4404530 4406032 R Code: G; COG: COG1129; ABC transporter ATP-binding protein complement(4404530..4406032) Shigella flexneri 5 str. 8401 4210457 YP_691551.1 CDS ppa NC_008258.1 4407438 4407968 D catalyzes the hydrolysis of pyrophosphate to phosphate; inorganic pyrophosphatase 4407438..4407968 Shigella flexneri 5 str. 8401 4210459 YP_691552.1 CDS ytfP NC_008258.1 4408347 4408688 R Code: S; COG: COG2105; hypothetical protein complement(4408347..4408688) Shigella flexneri 5 str. 8401 4210460 YP_691553.1 CDS ytfN NC_008258.1 4408691 4412470 R Code: S; COG: COG2911; hypothetical protein complement(4408691..4412470) Shigella flexneri 5 str. 8401 4210461 YP_691554.1 CDS ytfM NC_008258.1 4412467 4414200 R Code: M; COG: COG0729; hypothetical protein complement(4412467..4414200) Shigella flexneri 5 str. 8401 4210462 YP_691555.1 CDS msrA NC_008258.1 4414406 4415044 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 4414406..4415044 Shigella flexneri 5 str. 8401 4210992 YP_691556.1 CDS ytfL NC_008258.1 4415367 4416710 D Code: R; COG: COG1253; transport protein 4415367..4416710 Shigella flexneri 5 str. 8401 4210993 YP_691557.1 CDS ytfJ NC_008258.1 4417303 4417857 D Code: R; COG: COG3054; hypothetical protein 4417303..4417857 Shigella flexneri 5 str. 8401 4210994 YP_691558.1 CDS ytfI NC_008258.1 4417920 4418858 R hypothetical protein complement(4417920..4418858) Shigella flexneri 5 str. 8401 4210995 YP_691559.1 CDS cysQ NC_008258.1 4419070 4419762 R catalyzes the formation of AMP from adenosine-3',5'-bisphosphate; adenosine-3'(2'),5'-bisphosphate nucleotidase complement(4419070..4419762) Shigella flexneri 5 str. 8401 4210996 YP_691560.1 CDS cpdB NC_008258.1 4420000 4421943 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 4420000..4421943 Shigella flexneri 5 str. 8401 4210997 YP_691561.1 CDS ytfH NC_008258.1 4422069 4422560 R Code: K; COG: COG1733; hypothetical protein complement(4422069..4422560) Shigella flexneri 5 str. 8401 4210999 YP_691562.1 CDS ytfG NC_008258.1 4422538 4423398 D Code: MG; COG: COG0702; oxidoreductase 4422538..4423398 Shigella flexneri 5 str. 8401 4210998 YP_691563.1 CDS ytfF NC_008258.1 4423498 4424472 D Code: GER; COG: COG0697; transmembrane subunit 4423498..4424472 Shigella flexneri 5 str. 8401 4211000 YP_691564.1 CDS ytfE NC_008258.1 4424580 4425242 D Involved in anaerobic NO protection and iron metabolism; iron-sulfur cluster repair di-iron protein 4424580..4425242 Shigella flexneri 5 str. 8401 4211001 YP_691565.1 CDS cycA NC_008258.1 4425287 4426699 R involved in the transport across the cytoplasmic membrane of D-alanine, D-serine and glycine; D-alanine/D-serine/glycine permease complement(4425287..4426699) Shigella flexneri 5 str. 8401 4211002 YP_691566.1 CDS fklB NC_008258.1 4427008 4427628 R FKBP-type; rotamase; catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides; peptidyl-prolyl cis-trans isomerase complement(4427008..4427628) Shigella flexneri 5 str. 8401 4211003 YP_691567.1 CDS ytfB NC_008258.1 4427847 4428392 D Code: M; COG: COG3061; hypothetical protein 4427847..4428392 Shigella flexneri 5 str. 8401 4211004 YP_691568.1 CDS ytfA NC_008258.1 4428376 4429023 R hypothetical protein complement(4428376..4429023) Shigella flexneri 5 str. 8401 4211005 YP_691569.2 CDS SFV_4283 NC_008258.1 4429235 4430026 D catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-ACP reductase 4429235..4430026 Shigella flexneri 5 str. 8401 4211006 YP_691570.1 CDS SFV_4284 NC_008258.1 4430171 4430920 D Code: G; COG: COG1082; hypothetical protein 4430171..4430920 Shigella flexneri 5 str. 8401 4211007 YP_691571.1 CDS insB NC_008258.1 4430855 4431358 R Code: L; COG: COG1662; IS1 ORF2 complement(4430855..4431358) Shigella flexneri 5 str. 8401 4211008 YP_691572.1 CDS SFV_4286 NC_008258.1 4431472 4432428 D Code: L; COG: COG2801; IS600 ORF2 4431472..4432428 Shigella flexneri 5 str. 8401 4211009 YP_691573.1 CDS cadB NC_008258.1 4432469 4433521 R Code: E; COG: COG0531; transport of lysine/cadaverine complement(4432469..4433521) Shigella flexneri 5 str. 8401 4211010 YP_691574.1 CDS SFV_4288 NC_008258.1 4433561 4433815 R IS1 encoded protein complement(4433561..4433815) Shigella flexneri 5 str. 8401 4207585 YP_691575.1 CDS insB NC_008258.1 4433890 4434393 D Code: L; COG: COG1662; IS1 ORF2 4433890..4434393 Shigella flexneri 5 str. 8401 4207586 YP_691576.1 CDS yjdC NC_008258.1 4434938 4435513 R Code: K; COG: COG1309; transcriptional regulator complement(4434938..4435513) Shigella flexneri 5 str. 8401 4207588 YP_691577.1 CDS dipZ NC_008258.1 4435550 4437247 R 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 complement(4435550..4437247) Shigella flexneri 5 str. 8401 4207589 YP_691578.1 CDS cutA NC_008258.1 4437223 4437561 R copper binding protein required for copper tolerance; involved in resistance toward heavy metals; divalent-cation tolerance protein CutA complement(4437223..4437561) Shigella flexneri 5 str. 8401 4207590 YP_691579.1 CDS dcuA NC_008258.1 4437677 4438978 R functions in anaerobic transport of C4-dicarboxylate compounds such as fumarate; similar to dcuB; anaerobic C4-dicarboxylate transporter complement(4437677..4438978) Shigella flexneri 5 str. 8401 4207591 YP_691580.1 CDS aspA NC_008258.1 4439096 4440532 R catalyzes the formation of fumarate from aspartate; aspartate ammonia-lyase complement(4439096..4440532) Shigella flexneri 5 str. 8401 4207592 YP_691581.1 CDS fxsA NC_008258.1 4440869 4441345 D 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 4440869..4441345 Shigella flexneri 5 str. 8401 4207593 YP_691582.1 CDS yjeH NC_008258.1 4441361 4442617 R uncharacterized member of the APC superfamily of amino acid transporters; unknown function; hypothetical protein complement(4441361..4442617) Shigella flexneri 5 str. 8401 4207594 YP_691583.1 CDS groES NC_008258.1 4442893 4443186 D 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 4442893..4443186 Shigella flexneri 5 str. 8401 4207595 YP_691584.1 CDS groEL NC_008258.1 4443230 4444876 D 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; molecular chaperone GroEL 4443230..4444876 Shigella flexneri 5 str. 8401 4207596 YP_691585.1 CDS yjeI NC_008258.1 4445014 4445367 D hypothetical protein 4445014..4445367 Shigella flexneri 5 str. 8401 4207597 YP_691586.1 CDS yjeJ NC_008258.1 4445570 4446439 R hypothetical protein complement(4445570..4446439) Shigella flexneri 5 str. 8401 4207598 YP_691587.1 CDS SFV_4302 NC_008258.1 4446466 4446744 R IS1 encoded protein complement(4446466..4446744) Shigella flexneri 5 str. 8401 4207599 YP_691588.1 CDS insB NC_008258.1 4446819 4447322 D Code: L; COG: COG1662; IS1 ORF2 4446819..4447322 Shigella flexneri 5 str. 8401 4207600 YP_691589.1 CDS yjeK NC_008258.1 4447610 4448638 R Code: E; COG: COG1509; hypothetical protein complement(4447610..4448638) Shigella flexneri 5 str. 8401 4207601 YP_691590.1 CDS efp NC_008258.1 4448680 4449246 D Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA; elongation factor P 4448680..4449246 Shigella flexneri 5 str. 8401 4207602 YP_691591.1 CDS SFV_4306 NC_008258.1 4449534 4449680 D Code: S; COG: COG5510; entericidin B 4449534..4449680 Shigella flexneri 5 str. 8401 4207603 YP_691592.1 CDS sugE NC_008258.1 4449706 4450173 D Code: P; COG: COG2076; suppresser of groEL 4449706..4450173 Shigella flexneri 5 str. 8401 4209064 YP_691593.1 CDS blc NC_008258.1 4450170 4450703 R lipocalin; globomycin-sensitive outer membrane lipoprotein; outer membrane lipoprotein Blc complement(4450170..4450703) Shigella flexneri 5 str. 8401 4209065 YP_691594.1 CDS ampC NC_008258.1 4450792 4451958 R Code: V; COG: COG1680; beta-lactamase complement(4450792..4451958) Shigella flexneri 5 str. 8401 4209066 YP_691595.1 CDS frdD NC_008258.1 4451988 4452347 R in conjunction with FrdC acts to anchor the catalytic components of the fumarate reductase to the cytoplasmic membrane; fumarate reductase subunit D complement(4451988..4452347) Shigella flexneri 5 str. 8401 4209067 YP_691596.1 CDS frdC NC_008258.1 4452358 4452753 R 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 complement(4452358..4452753) Shigella flexneri 5 str. 8401 4209068 YP_691597.1 CDS frdB NC_008258.1 4452764 4453498 R 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 complement(4452764..4453498) Shigella flexneri 5 str. 8401 4209069 YP_691598.1 CDS frdA NC_008258.1 4453491 4455299 R 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 complement(4453491..4455299) Shigella flexneri 5 str. 8401 4209070 YP_691599.1 CDS yjeA NC_008258.1 4455624 4456601 D 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 4455624..4456601 Shigella flexneri 5 str. 8401 4209071 YP_691600.1 CDS yjeP NC_008258.1 4458463 4461774 R Code: M; COG: COG3264; hypothetical protein complement(4458463..4461774) Shigella flexneri 5 str. 8401 4209073 YP_691601.1 CDS psd NC_008258.1 4461796 4462764 R catalyzes the decarboxylation of phosphatidyl-L-serine to phosphatidylethanoleamine; phosphatidylserine decarboxylase complement(4461796..4462764) Shigella flexneri 5 str. 8401 4209074 YP_691602.1 CDS yjeQ NC_008258.1 4462861 4463874 R 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 complement(4462861..4463874) Shigella flexneri 5 str. 8401 4209075 YP_691603.2 CDS yjeR NC_008258.1 4464008 4464553 D 3'-5' exoribonuclease specific for small oligoribonuclotides; oligoribonuclease 4464008..4464553 Shigella flexneri 5 str. 8401 4209076 YP_691604.1 CDS yjeS NC_008258.1 4465564 4466748 R Code: C; COG: COG1600; hypothetical protein complement(4465564..4466748) Shigella flexneri 5 str. 8401 4208266 YP_691605.1 CDS yjeF NC_008258.1 4466702 4468249 D hypothetical protein 4466702..4468249 Shigella flexneri 5 str. 8401 4208265 YP_691606.1 CDS yjeE NC_008258.1 4468221 4468682 D possibly involved in cell wall synthesis; ATPase 4468221..4468682 Shigella flexneri 5 str. 8401 4208267 YP_691607.1 CDS amiB NC_008258.1 4468701 4470038 D Code: M; COG: COG0860; N-acetylmuramoyl-L-alanine amidase 4468701..4470038 Shigella flexneri 5 str. 8401 4208268 YP_691608.1 CDS mutL NC_008258.1 4470048 4471931 D 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 4470048..4471931 Shigella flexneri 5 str. 8401 4208269 YP_691609.1 CDS miaA NC_008258.1 4471969 4472874 D 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 4471969..4472874 Shigella flexneri 5 str. 8401 4208270 YP_691610.1 CDS hfq NC_008258.1 4472960 4473268 D Stimulates the elongation of poly(A) tails; RNA-binding protein Hfq 4472960..4473268 Shigella flexneri 5 str. 8401 4208271 YP_691611.1 CDS hflX NC_008258.1 4473413 4474624 D 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 4473413..4474624 Shigella flexneri 5 str. 8401 4208272 YP_691612.1 CDS hflK NC_008258.1 4474710 4475969 D with HflC inhibits proteolysis of lambda cII protein by FtsH; FtsH protease regulator HflK 4474710..4475969 Shigella flexneri 5 str. 8401 4208273 YP_691613.1 CDS hflC NC_008258.1 4475972 4476976 D with HflK inhibits proteolysis of lambda cII protein by FtsH; FtsH protease regulator HflC 4475972..4476976 Shigella flexneri 5 str. 8401 4208274 YP_691614.1 CDS yjeT NC_008258.1 4477058 4477255 D Code: S; COG: COG3242; hypothetical protein 4477058..4477255 Shigella flexneri 5 str. 8401 4208275 YP_691615.1 CDS purA NC_008258.1 4477359 4478657 D catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis; adenylosuccinate synthetase 4477359..4478657 Shigella flexneri 5 str. 8401 4208276 YP_691616.1 CDS yjeB NC_008258.1 4478862 4479287 D negatively regulates the transcription of genes upregulated by nitrosative stress; transcriptional repressor NsrR 4478862..4479287 Shigella flexneri 5 str. 8401 4208277 YP_691617.1 CDS vacB NC_008258.1 4479326 4481767 D 3'-5'exoribonuclease that acts nonspecifically on poly(A), poly(U) and ribosomal RNAs; exoribonuclease R 4479326..4481767 Shigella flexneri 5 str. 8401 4208278 YP_691618.1 CDS yjfH NC_008258.1 4481947 4482678 D Specifically methylates the ribose of guanosine 2251 in 23S rRNA; 23S rRNA (guanosine-2'-O-)-methyltransferase 4481947..4482678 Shigella flexneri 5 str. 8401 4208279 YP_691619.1 CDS SFV_4339 NC_008258.1 4482689 4482898 R IS1 encoded protein complement(4482689..4482898) Shigella flexneri 5 str. 8401 4208280 YP_691620.1 CDS insB NC_008258.1 4482973 4483476 D Code: L; COG: COG1662; IS1 ORF2 4482973..4483476 Shigella flexneri 5 str. 8401 4208281 YP_691621.1 CDS yjfM NC_008258.1 4483742 4484380 D Code: S; COG: COG5463; hypothetical protein 4483742..4484380 Shigella flexneri 5 str. 8401 4208596 YP_691622.1 CDS aidB NC_008258.1 4485630 4487255 D catalyzes the formation of 3-methylcrotonyl-CoA from isovaleryl-CoA; isovaleryl CoA dehydrogenase 4485630..4487255 Shigella flexneri 5 str. 8401 4208598 YP_691623.1 CDS yjfN NC_008258.1 4487372 4487647 R hypothetical protein complement(4487372..4487647) Shigella flexneri 5 str. 8401 4208599 YP_691624.1 CDS yjfO NC_008258.1 4487796 4488224 R in Escherichia coli, mutation of this gene affects biofilm maturation, stress response, and motility; biofilm stress and motility protein A complement(4487796..4488224) Shigella flexneri 5 str. 8401 4208600 YP_691625.1 CDS yjfP NC_008258.1 4488307 4489056 D YjfP; esterase activity towards palmitoyl-CoA and pNP-butyrate in vitro; unknown function and substrate in vivo; esterase 4488307..4489056 Shigella flexneri 5 str. 8401 4208601 YP_691626.1 CDS yjfQ NC_008258.1 4489053 4489808 R negative regulator of ulaG and ulaABCDEF; transcriptional repressor UlaR complement(4489053..4489808) Shigella flexneri 5 str. 8401 4208602 YP_691627.1 CDS yjfR NC_008258.1 4489916 4490971 R Code: R; COG: COG2220; L-ascorbate 6-phosphate lactonase complement(4489916..4490971) Shigella flexneri 5 str. 8401 4208603 YP_691628.1 CDS ulaA NC_008258.1 4491335 4492573 D 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 4491335..4492573 Shigella flexneri 5 str. 8401 4208604 YP_691629.1 CDS sgaB NC_008258.1 4492748 4493053 D 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 4492748..4493053 Shigella flexneri 5 str. 8401 4208605 YP_691630.1 CDS ptxA NC_008258.1 4493063 4493527 D 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 4493063..4493527 Shigella flexneri 5 str. 8401 4208606 YP_691631.1 CDS ulaD NC_008258.1 4493541 4494191 D 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 4493541..4494191 Shigella flexneri 5 str. 8401 4208607 YP_691632.1 CDS sgaU NC_008258.1 4494201 4495055 D 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 4494201..4495055 Shigella flexneri 5 str. 8401 4208608 YP_691633.1 CDS sgaE NC_008258.1 4495055 4495741 D 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 4495055..4495741 Shigella flexneri 5 str. 8401 4208609 YP_691634.1 CDS yjfY NC_008258.1 4495870 4496145 R hypothetical protein complement(4495870..4496145) Shigella flexneri 5 str. 8401 4208610 YP_691635.1 CDS rpsF NC_008258.1 4496472 4496867 D binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21; 30S ribosomal protein S6 4496472..4496867 Shigella flexneri 5 str. 8401 4208611 YP_691636.1 CDS rpsR NC_008258.1 4497193 4497420 D 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 4497193..4497420 Shigella flexneri 5 str. 8401 4208612 YP_691637.1 CDS rplI NC_008258.1 4497462 4497911 D in Escherichia coli this protein is wrapped around the base of the L1 stalk; 50S ribosomal protein L9 4497462..4497911 Shigella flexneri 5 str. 8401 4208613 YP_691638.1 CDS SFV_4359 NC_008258.1 4498609 4498887 D Code: L; COG: COG2963; ISEhe3 orfA 4498609..4498887 Shigella flexneri 5 str. 8401 4208614 YP_691639.1 CDS SFV_4360 NC_008258.1 4498944 4499525 D Code: L; COG: COG2801; ISEhe3 orfB 4498944..4499525 Shigella flexneri 5 str. 8401 4208615 YP_691640.1 CDS SFV_4361 NC_008258.1 4499566 4500279 R Code: L; COG: COG2801; IS600 ORF2 complement(4499566..4500279) Shigella flexneri 5 str. 8401 4208130 YP_691641.1 CDS SFV_4362 NC_008258.1 4500420 4500722 R Code: L; COG: COG2963; IS600 ORF1 complement(4500420..4500722) Shigella flexneri 5 str. 8401 4208131 YP_691642.1 CDS SFV_4363 NC_008258.1 4500787 4501107 D Code: S; COG: COG3586; hypothetical protein 4500787..4501107 Shigella flexneri 5 str. 8401 4208132 YP_691643.1 CDS yjiW NC_008258.1 4501154 4501495 R involved in the degradation of RNA; may be involved in the recycling of RNA during the SOS response; endoribonuclease SymE complement(4501154..4501495) Shigella flexneri 5 str. 8401 4208133 YP_691644.1 CDS SFV_4365 NC_008258.1 4501716 4503377 R Code: V; COG: COG0732; hypothetical protein complement(4501716..4503377) Shigella flexneri 5 str. 8401 4208134 YP_691645.1 CDS SFV_4366 NC_008258.1 4503377 4504867 R Code: V; COG: COG0286; restriction modification enzyme M subunit complement(4503377..4504867) Shigella flexneri 5 str. 8401 4208135 YP_691646.1 CDS SFV_4367 NC_008258.1 4504913 4507345 R Code: V; COG: COG4096; restriction modification enzyme R subunit complement(4504913..4507345) Shigella flexneri 5 str. 8401 4208136 YP_691647.1 CDS SFV_4368 NC_008258.1 4507480 4507761 R IS1 encoded protein complement(4507480..4507761) Shigella flexneri 5 str. 8401 4208137 YP_691648.1 CDS insB NC_008258.1 4507836 4508339 D Code: L; COG: COG1662; IS1 ORF2 4507836..4508339 Shigella flexneri 5 str. 8401 4208138 YP_691649.1 CDS SFV_4370 NC_008258.1 4508478 4509116 D hypothetical protein 4508478..4509116 Shigella flexneri 5 str. 8401 4208139 YP_691650.1 CDS yjiA NC_008258.1 4509185 4510141 R Code: R; COG: COG0523; GTP-binding protein YjiA complement(4509185..4510141) Shigella flexneri 5 str. 8401 4208140 YP_691651.1 CDS yjiX NC_008258.1 4510152 4510355 R Code: S; COG: COG2879; hypothetical protein complement(4510152..4510355) Shigella flexneri 5 str. 8401 4208141 YP_691652.1 CDS yjiY NC_008258.1 4510405 4512570 R Code: T; COG: COG1966; carbon starvation protein complement(4510405..4512570) Shigella flexneri 5 str. 8401 4208142 YP_691653.1 CDS hpaC NC_008258.1 4512948 4513460 R Code: R; COG: COG1853; component C of the 4HPA-hydroxylase complement(4512948..4513460) Shigella flexneri 5 str. 8401 4208143 YP_691654.1 CDS SFV_4376 NC_008258.1 4515289 4516119 R Code: R; COG: COG1234; hypothetical protein complement(4515289..4516119) Shigella flexneri 5 str. 8401 4208145 YP_691655.1 CDS hpaA NC_008258.1 4516227 4517117 R Code: K; COG: COG2207; 4-hydroxyphenylacetate 3-monooxygenase operon regulatory protein complement(4516227..4517117) Shigella flexneri 5 str. 8401 4208146 YP_691656.1 CDS hpaX NC_008258.1 4517127 4518482 R Code: GEPR; COG: COG0477; 4-hydroxyphenylacetate permease complement(4517127..4518482) Shigella flexneri 5 str. 8401 4208147 YP_691657.1 CDS hpaI NC_008258.1 4518504 4519079 R Code: G; COG: COG3836; 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase complement(4518504..4519079) Shigella flexneri 5 str. 8401 4208148 YP_691658.1 CDS hpaH NC_008258.1 4519314 4520117 R Code: Q; COG: COG3971; 2-oxo-hept-3-ene-1, 7-dioate hydratase complement(4519314..4520117) Shigella flexneri 5 str. 8401 4206724 YP_691659.1 CDS hpaF NC_008258.1 4520185 4520565 R Code: E; COG: COG3232; 5-carboxymethyl-2-hydroxymuconate delta-isomerase complement(4520185..4520565) Shigella flexneri 5 str. 8401 4206725 YP_691660.1 CDS hpaD NC_008258.1 4520575 4521429 R Code: S; COG: COG3384; homoprotocatechuate dyoxygenase complement(4520575..4521429) Shigella flexneri 5 str. 8401 4206726 YP_691661.1 CDS hpaE NC_008258.1 4521431 4522897 R Code: C; COG: COG1012; 5-carboxy-2-hydroxymuconate semialdehyde dehydrogenase complement(4521431..4522897) Shigella flexneri 5 str. 8401 4206727 YP_691662.1 CDS hpaG NC_008258.1 4522894 4524183 R Code: Q; COG: COG0179; 5-oxo-1,2,5-tricarboxilic-3-penten acid decarboxylase/isomerase complement(4522894..4524183) Shigella flexneri 5 str. 8401 4206728 YP_691663.1 CDS hpcR NC_008258.1 4524455 4524901 D Code: K; COG: COG1846; regulator of the 4HPA-hydroxylase operon 4524455..4524901 Shigella flexneri 5 str. 8401 4206729 YP_691664.1 CDS tsr NC_008258.1 4525020 4526684 D Code: NT; COG: COG0840; methyl-accepting chemotaxis protein I, serine sensor receptor 4525020..4526684 Shigella flexneri 5 str. 8401 4206730 YP_691665.1 CDS yjiZ NC_008258.1 4526733 4528094 R Code: GEPR; COG: COG0477; transport protein complement(4526733..4528094) Shigella flexneri 5 str. 8401 4206731 YP_691666.1 CDS yjjM NC_008258.1 4528528 4529223 R Code: K; COG: COG1802; hypothetical protein complement(4528528..4529223) Shigella flexneri 5 str. 8401 4206732 YP_691667.1 CDS yjjN NC_008258.1 4529617 4530384 D Code: ER; COG: COG1063; oxidoreductase 4529617..4530384 Shigella flexneri 5 str. 8401 4206733 YP_691668.2 CDS mdoB NC_008258.1 4530522 4532735 R catalyzes the transfer of phosphoglycerol to the glucan backbone; phosphoglycerol transferase I complement(4530522..4532735) Shigella flexneri 5 str. 8401 4206734 YP_691669.1 CDS yjjA NC_008258.1 4533066 4533563 R hypothetical protein complement(4533066..4533563) Shigella flexneri 5 str. 8401 4206735 YP_691670.1 CDS dnaC NC_008258.1 4533609 4534346 R acts to load the DnaB helicase onto the initiation site during DNA replication; DNA replication protein DnaC complement(4533609..4534346) Shigella flexneri 5 str. 8401 4206736 YP_691671.1 CDS dnaT NC_008258.1 4534349 4534900 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(4534349..4534900) Shigella flexneri 5 str. 8401 4206737 YP_691672.1 CDS yjjB NC_008258.1 4534995 4535468 R Code: S; COG: COG3610; hypothetical protein complement(4534995..4535468) Shigella flexneri 5 str. 8401 4206738 YP_691673.1 CDS yjjP NC_008258.1 4535459 4536229 R Code: S; COG: COG2966; structural protein complement(4535459..4536229) Shigella flexneri 5 str. 8401 4206739 YP_691674.1 CDS SFV_4396 NC_008258.1 4536754 4536972 R IS1 encoded protein complement(4536754..4536972) Shigella flexneri 5 str. 8401 4206740 YP_691675.1 CDS insB NC_008258.1 4537047 4537550 D Code: L; COG: COG1662; IS1 ORF2 4537047..4537550 Shigella flexneri 5 str. 8401 4206741 YP_691676.1 CDS yjjQ NC_008258.1 4537552 4538136 D Code: TK; COG: COG2197; regulator 4537552..4538136 Shigella flexneri 5 str. 8401 4206742 YP_691677.1 CDS bglJ NC_008258.1 4538094 4538771 D regulator for the transport and utilization of the aromatic beta-glucosides arbutin and silicin; DNA-binding transcriptional activator BglJ 4538094..4538771 Shigella flexneri 5 str. 8401 4206743 YP_691678.1 CDS fhuF NC_008258.1 4538809 4539597 R Code: R; COG: COG4114; ferric hydroximate transport ferric iron reductase complement(4538809..4539597) Shigella flexneri 5 str. 8401 4208765 YP_691679.1 CDS SFV_4401 NC_008258.1 4539627 4539974 D inner membrane protein 4539627..4539974 Shigella flexneri 5 str. 8401 4208766 YP_691680.1 CDS rsmC NC_008258.1 4540612 4541643 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(4540612..4541643) Shigella flexneri 5 str. 8401 4208770 YP_691681.1 CDS holD NC_008258.1 4541746 4542159 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 4541746..4542159 Shigella flexneri 5 str. 8401 4208771 YP_691682.1 CDS rimI NC_008258.1 4542128 4542574 D alanine acetyltransferase that specifically acetylates ribosomal protein S18; ribosomal-protein-alanine N-acetyltransferase 4542128..4542574 Shigella flexneri 5 str. 8401 4208772 YP_691683.1 CDS yjjG NC_008258.1 4542589 4543266 D manganese-dependent 5'-nucleotidase; specific for 5'-UMP, 5'-dUMP, and 5'-dTMP; member of haloacid dehalogenase (HAD)-like hydrolase superfamily; nucleotidase 4542589..4543266 Shigella flexneri 5 str. 8401 4208773 YP_691684.1 CDS prfC NC_008258.1 4543357 4544946 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 4543357..4544946 Shigella flexneri 5 str. 8401 4208774 YP_691685.1 CDS osmY NC_008258.1 4545339 4545944 D Code: R; COG: COG2823; periplasmic protein 4545339..4545944 Shigella flexneri 5 str. 8401 4208775 YP_691686.1 CDS yjjU NC_008258.1 4546354 4547427 D Code: R; COG: COG4667; hypothetical protein 4546354..4547427 Shigella flexneri 5 str. 8401 4208776 YP_691687.1 CDS yjjV NC_008258.1 4547424 4548206 D Code: L; COG: COG0084; deoxyribonuclease YjjV 4547424..4548206 Shigella flexneri 5 str. 8401 4208777 YP_691688.1 CDS yjjW NC_008258.1 4548420 4549283 R Code: O; COG: COG1180; activating enzyme complement(4548420..4549283) Shigella flexneri 5 str. 8401 4208778 YP_691689.1 CDS yjjI NC_008258.1 4549255 4550796 R hypothetical protein complement(4549255..4550796) Shigella flexneri 5 str. 8401 4208779 YP_691690.1 CDS deoC NC_008258.1 4551054 4551833 D catalyzes the formation of D-glyceraldehyde 3-phosphate and acetaldehyde from 2-deoxy-D-ribose-5-phosphate; deoxyribose-phosphate aldolase 4551054..4551833 Shigella flexneri 5 str. 8401 4208780 YP_691691.1 CDS deoA NC_008258.1 4551960 4553282 D Catalyzes the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate; thymidine phosphorylase 4551960..4553282 Shigella flexneri 5 str. 8401 4208244 YP_691692.1 CDS deoB NC_008258.1 4553334 4554557 D catalyzes the transfer of phosphate between the C1 and C5 carbons of pentose; phosphopentomutase 4553334..4554557 Shigella flexneri 5 str. 8401 4208245 YP_691693.1 CDS deoD NC_008258.1 4554614 4555333 D catalyzes the reversible phosphorolysis of ribonucleosides and 2'- deoxyribonucleosides to the free base and (2'-deoxy)ribose-1- phosphate; purine nucleoside phosphorylase 4554614..4555333 Shigella flexneri 5 str. 8401 4208246 YP_691694.1 CDS SFV_4419 NC_008258.1 4555494 4555757 R Code: K; COG: COG1396; hypothetical protein complement(4555494..4555757) Shigella flexneri 5 str. 8401 4208247 YP_691695.1 CDS smp NC_008258.1 4556832 4557476 R Code: R; COG: COG3726; hypothetical protein complement(4556832..4557476) Shigella flexneri 5 str. 8401 4208249 YP_691696.1 CDS serB NC_008258.1 4557582 4558550 D catalyzes the formation of serine from O-phosphoserine; phosphoserine phosphatase 4557582..4558550 Shigella flexneri 5 str. 8401 4208250 YP_691697.1 CDS sms NC_008258.1 4558599 4559981 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 4558599..4559981 Shigella flexneri 5 str. 8401 4208251 YP_691698.1 CDS nadR NC_008258.1 4560002 4561234 D catalyzes the formation of NAD(+) from nicotinamide ribonucleotide; nicotinamide-nucleotide adenylyltransferase 4560002..4561234 Shigella flexneri 5 str. 8401 4208252 YP_691699.1 CDS yjjK NC_008258.1 4561542 4563188 R ChvD; in Agrobacterium tumefaciens, mutations in both Walker boxes were found to affect virulence; ABC transporter ATP-binding protein complement(4561542..4563188) Shigella flexneri 5 str. 8401 4208253 YP_691700.1 CDS slt NC_008258.1 4563420 4565357 D catalyzes the cleavage of the glycosidic bonds between N-acetylmuramic acid and N-acetylglucosamine residues in peptidoglycan; lytic murein transglycosylase 4563420..4565357 Shigella flexneri 5 str. 8401 4208254 YP_691701.1 CDS trpR NC_008258.1 4565447 4565773 D When complexed with L-tryptophan it binds the operator region of the trp operon and prevents the initiation of transcription; Trp operon repressor 4565447..4565773 Shigella flexneri 5 str. 8401 4208255 YP_691702.1 CDS yjjX NC_008258.1 4565905 4566387 R Code: S; COG: COG1986; hypothetical protein complement(4565905..4566387) Shigella flexneri 5 str. 8401 4208256 YP_691703.1 CDS gpmB NC_008258.1 4566430 4567077 D catalyzes reactions involving the transfer of phospho groups between the three carbon atoms of phosphoglycerate; phosphoglycerate mutase 4566430..4567077 Shigella flexneri 5 str. 8401 4208257 YP_691704.1 CDS rob NC_008258.1 4567074 4567943 R Code: K; COG: COG2207; right origin-binding protein complement(4567074..4567943) Shigella flexneri 5 str. 8401 4208258 YP_691705.1 CDS creA NC_008258.1 4568154 4568627 D Code: S; COG: COG3045; hypothetical protein 4568154..4568627 Shigella flexneri 5 str. 8401 4208259 YP_691706.1 CDS creB NC_008258.1 4568640 4569329 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 4568640..4569329 Shigella flexneri 5 str. 8401 4208260 YP_691707.1 CDS creC NC_008258.1 4569329 4570753 D part of a two-component regulatory system with CreB or PhoB; involved in catabolic regulation; sensory histidine kinase CreC 4569329..4570753 Shigella flexneri 5 str. 8401 4208261 YP_691708.1 CDS creD NC_008258.1 4570811 4572163 D Code: V; COG: COG4452; hypothetical protein 4570811..4572163 Shigella flexneri 5 str. 8401 4208262 YP_691709.1 CDS arcA NC_008258.1 4572222 4572938 R Code: TK; COG: COG0745; two-component response regulator complement(4572222..4572938) Shigella flexneri 5 str. 8401 4208263 YP_691710.1 CDS lasT NC_008258.1 4573574 4574260 D member of the SPOUT superfamily of methyltransferases; RNA methyltransferase 4573574..4574260 Shigella flexneri 5 str. 8401 4208817 SFV_0186 tRNA SFV_0186 NC_008258.1 215956 216031 D tRNA-Glu 215956..216031 Shigella flexneri 5 str. 8401 4209919 SFV_0189 tRNA SFV_0189 NC_008258.1 219394 219470 D tRNA-Asp 219394..219470 Shigella flexneri 5 str. 8401 4208057 SFV_0200 tRNA SFV_0200 NC_008258.1 229056 229132 D tRNA-Asp 229056..229132 Shigella flexneri 5 str. 8401 4208068 SFV_0284 tRNA SFV_0284 NC_008258.1 300690 300765 R tRNA-Thr complement(300690..300765) Shigella flexneri 5 str. 8401 4210195 SFV_0498 tRNA SFV_0498 NC_008258.1 521805 521881 D tRNA-Arg 521805..521881 Shigella flexneri 5 str. 8401 4210079 SFV_0591 tRNA SFV_0591 NC_008258.1 619435 619510 R tRNA-Lys complement(619435..619510) Shigella flexneri 5 str. 8401 4210824 SFV_0592 tRNA SFV_0592 NC_008258.1 619514 619589 R tRNA-Val complement(619514..619589) Shigella flexneri 5 str. 8401 4210825 SFV_0593 tRNA SFV_0593 NC_008258.1 619725 619800 R tRNA-Lys complement(619725..619800) Shigella flexneri 5 str. 8401 4210826 SFV_0658 tRNA SFV_0658 NC_008258.1 699071 699147 D tRNA-Met 699071..699147 Shigella flexneri 5 str. 8401 4210706 SFV_0659 tRNA SFV_0659 NC_008258.1 699157 699241 D tRNA-Leu 699157..699241 Shigella flexneri 5 str. 8401 4210707 SFV_0660 tRNA SFV_0660 NC_008258.1 699265 699339 D tRNA-Gln 699265..699339 Shigella flexneri 5 str. 8401 4210708 SFV_0661 tRNA SFV_0661 NC_008258.1 699374 699448 D tRNA-Gln 699374..699448 Shigella flexneri 5 str. 8401 4210709 SFV_0662 tRNA SFV_0662 NC_008258.1 699464 699540 D tRNA-Met 699464..699540 Shigella flexneri 5 str. 8401 4209712 SFV_0663 tRNA SFV_0663 NC_008258.1 699589 699663 D tRNA-Gln 699589..699663 Shigella flexneri 5 str. 8401 4209713 SFV_0664 tRNA SFV_0664 NC_008258.1 699701 699775 D tRNA-Gln 699701..699775 Shigella flexneri 5 str. 8401 4209714 SFV_0729 tRNA SFV_0729 NC_008258.1 761608 761682 R tRNA-Gly complement(761608..761682) Shigella flexneri 5 str. 8401 4207205 SFV_0730 tRNA SFV_0730 NC_008258.1 761686 761760 R tRNA-Thr complement(761686..761760) Shigella flexneri 5 str. 8401 4207206 SFV_0731 tRNA SFV_0731 NC_008258.1 761763 761839 R tRNA-Arg complement(761763..761839) Shigella flexneri 5 str. 8401 4207207 SFV_0732 tRNA SFV_0732 NC_008258.1 761841 761917 R tRNA-Met complement(761841..761917) Shigella flexneri 5 str. 8401 4207400 SFV_0874 tRNA SFV_0874 NC_008258.1 911349 911436 R tRNA-Ser complement(911349..911436) Shigella flexneri 5 str. 8401 4208940 SFV_0980 tRNA SFV_0980 NC_008258.1 1028186 1028273 R tRNA-Ser complement(1028186..1028273) Shigella flexneri 5 str. 8401 4209249 SFV_1043 tRNA SFV_1043 NC_008258.1 1091825 1091912 R tRNA-Ser complement(1091825..1091912) Shigella flexneri 5 str. 8401 4207267 SFV_1244 tRNA SFV_1244 NC_008258.1 1297271 1297355 R tRNA-Tyr complement(1297271..1297355) Shigella flexneri 5 str. 8401 4209663 SFV_1364 tRNA SFV_1364 NC_008258.1 1416161 1416237 D tRNA-Met 1416161..1416237 Shigella flexneri 5 str. 8401 4209612 SFV_1365 tRNA SFV_1365 NC_008258.1 1416239 1416315 D tRNA-Arg 1416239..1416315 Shigella flexneri 5 str. 8401 4209613 SFV_1366 tRNA SFV_1366 NC_008258.1 1416318 1416393 D tRNA-Thr 1416318..1416393 Shigella flexneri 5 str. 8401 4209614 SFV_1367 tRNA SFV_1367 NC_008258.1 1416397 1416471 D tRNA-Gly 1416397..1416471 Shigella flexneri 5 str. 8401 4209615 SFV_1538 tRNA SFV_1538 NC_008258.1 1580026 1580102 R tRNA-Arg complement(1580026..1580102) Shigella flexneri 5 str. 8401 4207903 SFV_1539 tRNA SFV_1539 NC_008258.1 1580204 1580279 R tRNA-Met complement(1580204..1580279) Shigella flexneri 5 str. 8401 4207904 SFV_1687 tRNA SFV_1687 NC_008258.1 1725568 1725644 D tRNA-Val 1725568..1725644 Shigella flexneri 5 str. 8401 4208827 SFV_1688 tRNA SFV_1688 NC_008258.1 1725649 1725725 D tRNA-Val 1725649..1725725 Shigella flexneri 5 str. 8401 4208828 SFV_1888 tRNA SFV_1888 NC_008258.1 1937422 1937496 R tRNA-Gly complement(1937422..1937496) Shigella flexneri 5 str. 8401 4207022 SFV_1889 tRNA SFV_1889 NC_008258.1 1937500 1937575 R tRNA-Thr complement(1937500..1937575) Shigella flexneri 5 str. 8401 4207023 SFV_1890 tRNA SFV_1890 NC_008258.1 1937578 1937654 R tRNA-Arg complement(1937578..1937654) Shigella flexneri 5 str. 8401 4207436 SFV_1891 tRNA SFV_1891 NC_008258.1 1937656 1937731 R tRNA-Met complement(1937656..1937731) Shigella flexneri 5 str. 8401 4207437 SFV_1953 tRNA SFV_1953 NC_008258.1 1996770 1996856 R tRNA-Leu complement(1996770..1996856) Shigella flexneri 5 str. 8401 4207460 SFV_1954 tRNA SFV_1954 NC_008258.1 1996869 1996942 R tRNA-Cys complement(1996869..1996942) Shigella flexneri 5 str. 8401 4207461 SFV_1955 tRNA SFV_1955 NC_008258.1 1996997 1997072 R tRNA-Gly complement(1996997..1997072) Shigella flexneri 5 str. 8401 4207462 SFV_2030 tRNA SFV_2030 NC_008258.1 2061198 2061272 R tRNA-Gly complement(2061198..2061272) Shigella flexneri 5 str. 8401 4207000 SFV_2031 tRNA SFV_2031 NC_008258.1 2061276 2061351 R tRNA-Thr complement(2061276..2061351) Shigella flexneri 5 str. 8401 4207001 SFV_2032 tRNA SFV_2032 NC_008258.1 2061354 2061430 R tRNA-Lys complement(2061354..2061430) Shigella flexneri 5 str. 8401 4207002 SFV_2033 tRNA SFV_2033 NC_008258.1 2061432 2061507 R tRNA-Met complement(2061432..2061507) Shigella flexneri 5 str. 8401 4207003 SFV_2044 tRNA SFV_2044 NC_008258.1 2068694 2068783 R tRNA-Ser complement(2068694..2068783) Shigella flexneri 5 str. 8401 4207428 SFV_2046 tRNA SFV_2046 NC_008258.1 2069775 2069850 D tRNA-Asn 2069775..2069850 Shigella flexneri 5 str. 8401 4207430 SFV_2055 tRNA SFV_2055 NC_008258.1 2077654 2077729 R tRNA-Asn complement(2077654..2077729) Shigella flexneri 5 str. 8401 4207179 SFV_2058 tRNA SFV_2058 NC_008258.1 2079462 2079537 D tRNA-Asn 2079462..2079537 Shigella flexneri 5 str. 8401 4207182 SFV_2061 tRNA SFV_2061 NC_008258.1 2081872 2081947 D tRNA-Asn 2081872..2081947 Shigella flexneri 5 str. 8401 4207185 SFV_2267 tRNA SFV_2267 NC_008258.1 2303108 2303184 D tRNA-Pro 2303108..2303184 Shigella flexneri 5 str. 8401 4210977 SFV_2416 tRNA SFV_2416 NC_008258.1 2468390 2468464 D tRNA-Arg 2468390..2468464 Shigella flexneri 5 str. 8401 4207245 SFV_2452 tRNA SFV_2452 NC_008258.1 2513270 2513345 R tRNA-Ala complement(2513270..2513345) Shigella flexneri 5 str. 8401 4208650 SFV_2456 tRNA SFV_2456 NC_008258.1 2516051 2516126 D tRNA-Val 2516051..2516126 Shigella flexneri 5 str. 8401 4208802 SFV_2457 tRNA SFV_2457 NC_008258.1 2516170 2516245 D tRNA-Val 2516170..2516245 Shigella flexneri 5 str. 8401 4208803 SFV_2458 tRNA SFV_2458 NC_008258.1 2516250 2516325 D tRNA-Lys 2516250..2516325 Shigella flexneri 5 str. 8401 4208804 SFV_2653 tRNA SFV_2653 NC_008258.1 2722901 2722976 R tRNA-Glu complement(2722901..2722976) Shigella flexneri 5 str. 8401 4208698 SFV_2700 tRNA SFV_2700 NC_008258.1 2773368 2773444 D tRNA-Met 2773368..2773444 Shigella flexneri 5 str. 8401 4208989 SFV_2701 tRNA SFV_2701 NC_008258.1 2773446 2773522 D tRNA-Arg 2773446..2773522 Shigella flexneri 5 str. 8401 4207944 SFV_2702 tRNA SFV_2702 NC_008258.1 2773525 2773600 D tRNA-Thr 2773525..2773600 Shigella flexneri 5 str. 8401 4207945 SFV_2703 tRNA SFV_2703 NC_008258.1 2773604 2773678 D tRNA-Gly 2773604..2773678 Shigella flexneri 5 str. 8401 4207946 SFV_2810 tRNA SFV_2810 NC_008258.1 2878553 2878645 D tRNA-Ser 2878553..2878645 Shigella flexneri 5 str. 8401 4207942 SFV_2811 tRNA SFV_2811 NC_008258.1 2878649 2878725 D tRNA-Arg 2878649..2878725 Shigella flexneri 5 str. 8401 4207943 SFV_2812 tRNA SFV_2812 NC_008258.1 2878790 2878866 D tRNA-Arg 2878790..2878866 Shigella flexneri 5 str. 8401 4207063 SFV_2813 tRNA SFV_2813 NC_008258.1 2878931 2879007 D tRNA-Arg 2878931..2879007 Shigella flexneri 5 str. 8401 4207064 SFV_2846 tRNA SFV_2846 NC_008258.1 2910825 2910900 D tRNA-Met 2910825..2910900 Shigella flexneri 5 str. 8401 4208438 SFV_2893 tRNA SFV_2893 NC_008258.1 2954823 2954899 D tRNA-Met 2954823..2954899 Shigella flexneri 5 str. 8401 4209258 SFV_2894 tRNA SFV_2894 NC_008258.1 2954933 2955009 D tRNA-Met 2954933..2955009 Shigella flexneri 5 str. 8401 4209259 SFV_2927 tRNA SFV_2927 NC_008258.1 2996991 2997064 R tRNA-Gly complement(2996991..2997064) Shigella flexneri 5 str. 8401 4209158 SFV_3026 tRNA SFV_3026 NC_008258.1 3090255 3090330 D tRNA-Phe 3090255..3090330 Shigella flexneri 5 str. 8401 4210866 SFV_3110 tRNA SFV_3110 NC_008258.1 3177925 3178000 D tRNA-Met 3177925..3178000 Shigella flexneri 5 str. 8401 4207093 SFV_3201 tRNA SFV_3201 NC_008258.1 3274053 3274129 R tRNA-Met complement(3274053..3274129) Shigella flexneri 5 str. 8401 4207691 SFV_3204 tRNA SFV_3204 NC_008258.1 3277913 3277999 R tRNA-Leu complement(3277913..3277999) Shigella flexneri 5 str. 8401 4207694 SFV_3295 tRNA SFV_3295 NC_008258.1 3368339 3368414 R tRNA-Thr complement(3368339..3368414) Shigella flexneri 5 str. 8401 4211074 SFV_3298 tRNA SFV_3298 NC_008258.1 3371737 3371812 R tRNA-Glu complement(3371737..3371812) Shigella flexneri 5 str. 8401 4211077 SFV_3542 tRNA SFV_3542 NC_008258.1 3611713 3611789 D tRNA-Pro 3611713..3611789 Shigella flexneri 5 str. 8401 4208173 SFV_3648 tRNA SFV_3648 NC_008258.1 3733484 3733559 R tRNA-Glu complement(3733484..3733559) Shigella flexneri 5 str. 8401 4209005 SFV_3704 tRNA SFV_3704 NC_008258.1 3791507 3791583 R tRNA-Pro complement(3791507..3791583) Shigella flexneri 5 str. 8401 4210246 SFV_3705 tRNA SFV_3705 NC_008258.1 3791626 3791712 R tRNA-Leu complement(3791626..3791712) Shigella flexneri 5 str. 8401 4210247 SFV_3706 tRNA SFV_3706 NC_008258.1 3791733 3791808 R tRNA-His complement(3791733..3791808) Shigella flexneri 5 str. 8401 4209119 SFV_3707 tRNA SFV_3707 NC_008258.1 3791867 3791943 R tRNA-Arg complement(3791867..3791943) Shigella flexneri 5 str. 8401 4209120 SFV_3738 tRNA SFV_3738 NC_008258.1 3826408 3826483 R tRNA-Trp complement(3826408..3826483) Shigella flexneri 5 str. 8401 4211137 SFV_3739 tRNA SFV_3739 NC_008258.1 3826492 3826568 R tRNA-Asp complement(3826492..3826568) Shigella flexneri 5 str. 8401 4211138 SFV_3742 tRNA SFV_3742 NC_008258.1 3829931 3830006 R tRNA-Glu complement(3829931..3830006) Shigella flexneri 5 str. 8401 4206766 SFV_3871 tRNA SFV_3871 NC_008258.1 3971892 3971982 R tRNA-Sec complement(3971892..3971982) Shigella flexneri 5 str. 8401 4207116 SFV_4042 tRNA SFV_4042 NC_008258.1 4159482 4159557 D tRNA-Glu 4159482..4159557 Shigella flexneri 5 str. 8401 4210535 SFV_4048 tRNA SFV_4048 NC_008258.1 4166325 4166400 D tRNA-Thr 4166325..4166400 Shigella flexneri 5 str. 8401 4206940 SFV_4049 tRNA SFV_4049 NC_008258.1 4166409 4166493 D tRNA-Tyr 4166409..4166493 Shigella flexneri 5 str. 8401 4206941 SFV_4050 tRNA SFV_4050 NC_008258.1 4166610 4166684 D tRNA-Gly 4166610..4166684 Shigella flexneri 5 str. 8401 4206942 SFV_4051 tRNA SFV_4051 NC_008258.1 4166691 4166766 D tRNA-Thr 4166691..4166766 Shigella flexneri 5 str. 8401 4206943 SFV_4080 tRNA SFV_4080 NC_008258.1 4199921 4199996 D tRNA-Glu 4199921..4199996 Shigella flexneri 5 str. 8401 4210919 SFV_4228 tRNA SFV_4228 NC_008258.1 4364730 4364814 R tRNA-Leu complement(4364730..4364814) Shigella flexneri 5 str. 8401 4210916 SFV_4290 tRNA SFV_4290 NC_008258.1 4434756 4434831 R tRNA-Phe complement(4434756..4434831) Shigella flexneri 5 str. 8401 4207587 SFV_4320 tRNA SFV_4320 NC_008258.1 4464764 4464839 D tRNA-Gly 4464764..4464839 Shigella flexneri 5 str. 8401 4209077 SFV_4321 tRNA SFV_4321 NC_008258.1 4464997 4465072 D tRNA-Gly 4464997..4465072 Shigella flexneri 5 str. 8401 4209078 SFV_4322 tRNA SFV_4322 NC_008258.1 4465108 4465183 D tRNA-Gly 4465108..4465183 Shigella flexneri 5 str. 8401 4209079 SFV_4323 tRNA SFV_4323 NC_008258.1 4465219 4465294 D tRNA-Gly 4465219..4465294 Shigella flexneri 5 str. 8401 4208264 SFV_4402 tRNA SFV_4402 NC_008258.1 4540013 4540099 R tRNA-Leu complement(4540013..4540099) Shigella flexneri 5 str. 8401 4208767 SFV_4403 tRNA SFV_4403 NC_008258.1 4540134 4540220 R tRNA-Leu complement(4540134..4540220) Shigella flexneri 5 str. 8401 4208768 SFV_4404 tRNA SFV_4404 NC_008258.1 4540249 4540335 R tRNA-Leu complement(4540249..4540335) Shigella flexneri 5 str. 8401 4208769 SFV_0185 rRNA rrsH NC_008258.1 214329 215870 D 16S ribosomal RNA 214329..215870 Shigella flexneri 5 str. 8401 4209918 SFV_0187 rRNA rrlH NC_008258.1 216225 219128 D 23S ribosomal RNA 216225..219128 Shigella flexneri 5 str. 8401 4208055 SFV_0188 rRNA rrfH NC_008258.1 219223 219341 D 5S ribosomal RNA 219223..219341 Shigella flexneri 5 str. 8401 4208056 SFV_2651 rRNA rrfG NC_008258.1 2719591 2719709 R 5S ribosomal RNA complement(2719591..2719709) Shigella flexneri 5 str. 8401 4208696 SFV_2652 rRNA rrlG NC_008258.1 2719804 2722707 R 23S ribosomal RNA complement(2719804..2722707) Shigella flexneri 5 str. 8401 4208697 SFV_2654 rRNA rrsG NC_008258.1 2723062 2724603 R 16S ribosomal RNA complement(2723062..2724603) Shigella flexneri 5 str. 8401 4208699 SFV_3294 rRNA rrfF NC_008258.1 3368182 3368298 R 5S ribosomal RNA complement(3368182..3368298) Shigella flexneri 5 str. 8401 4211073 SFV_3296 rRNA rrfD NC_008258.1 3368427 3368545 R 5S ribosomal RNA complement(3368427..3368545) Shigella flexneri 5 str. 8401 4211075 SFV_3297 rRNA rrlD NC_008258.1 3368640 3371543 R 23S ribosomal RNA complement(3368640..3371543) Shigella flexneri 5 str. 8401 4211076 SFV_3299 rRNA rrsD NC_008258.1 3371898 3373439 R 16S ribosomal RNA complement(3371898..3373439) Shigella flexneri 5 str. 8401 4211078 SFV_3646 rRNA rrfA NC_008258.1 3730174 3730292 R 5S ribosomal RNA complement(3730174..3730292) Shigella flexneri 5 str. 8401 4209003 SFV_3647 rRNA rrlA NC_008258.1 3730387 3733290 R 23S ribosomal RNA complement(3730387..3733290) Shigella flexneri 5 str. 8401 4209004 SFV_3649 rRNA rrsA NC_008258.1 3733645 3735186 R 16S ribosomal RNA complement(3733645..3735186) Shigella flexneri 5 str. 8401 4209006 SFV_3740 rRNA rrfC NC_008258.1 3826621 3826739 R 5S ribosomal RNA complement(3826621..3826739) Shigella flexneri 5 str. 8401 4206764 SFV_3741 rRNA rrlC NC_008258.1 3826834 3829737 R 23S ribosomal RNA complement(3826834..3829737) Shigella flexneri 5 str. 8401 4206765 SFV_3743 rRNA rrsC NC_008258.1 3830092 3831633 R 16S ribosomal RNA complement(3830092..3831633) Shigella flexneri 5 str. 8401 4206767 SFV_4041 rRNA rrsB NC_008258.1 4157855 4159396 D 16S ribosomal RNA 4157855..4159396 Shigella flexneri 5 str. 8401 4210534 SFV_4043 rRNA rrlB NC_008258.1 4159751 4162654 D 23S ribosomal RNA 4159751..4162654 Shigella flexneri 5 str. 8401 4210536 SFV_4044 rRNA rrfB NC_008258.1 4162749 4162867 D 5S ribosomal RNA 4162749..4162867 Shigella flexneri 5 str. 8401 4210537 SFV_4079 rRNA rrsE NC_008258.1 4198290 4199835 D 16S ribosomal RNA 4198290..4199835 Shigella flexneri 5 str. 8401 4210918 SFV_4081 rRNA rrlE NC_008258.1 4200190 4203093 D 23S ribosomal RNA 4200190..4203093 Shigella flexneri 5 str. 8401 4210920 SFV_4082 rRNA rrfE NC_008258.1 4203188 4203306 D 5S ribosomal RNA 4203188..4203306 Shigella flexneri 5 str. 8401 4210921