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| | Smed_0153 | PFAM: helicase domain protein; DEAD/DEAH box helicase domain protein; DEAD/H associated domain protein; SMART: DEAD-like helicases; KEGG: sme:SMc02237 putative ATP-dependent helicase protein. (884 aa) |
| | Smed_0150 | PFAM: glutathione-dependent formaldehyde-activating GFA; KEGG: sme:SMa0112 hypothetical protein. (135 aa) |
| | apaG | PFAM: ApaG domain protein; KEGG: sme:SMc02135 ApaG protein. (130 aa) |
| | Smed_0124 | Two component transcriptional regulator, winged helix family; TIGRFAM: phosphate regulon transcriptional regulatory protein PhoB; PFAM: response regulator receiver; transcriptional regulator domain protein; KEGG: sme:SMc02140 phosphate regulon transcriptional regulatory protein. (227 aa) |
| | Smed_0118 | PAS/PAC sensor signal transduction histidine kinase; TIGRFAM: Phosphate regulon sensor kinase PhoR; PFAM: ATP-binding region ATPase domain protein; histidine kinase A domain protein; PAS fold-4 domain protein; KEGG: sme:SMc02147 probable phosphate regulon sensor histidine kinase transmembrane protein. (415 aa) |
| | Smed_0097 | Putative Chase2 sensor protein; PFAM: adenylyl cyclase class-3/4/guanylyl cyclase; CHASE2 domain protein; KEGG: sme:SMc02176 putative adenylate cyclase transmembrane protein. (635 aa) |
| | Smed_0082 | PFAM: histidine kinase HAMP region domain protein; chemotaxis sensory transducer; KEGG: sme:SMc01719 probable chemoreceptor (methyl-accepting chemotaxis) transmembrane protein. (665 aa) |
| | Smed_0073 | TIGRFAM: methylated-DNA--protein-cysteine methyltransferase; PFAM: Ada metal-binding domain protein; Methylated-DNA-[protein]-cysteine S-methyltransferase DNA binding; SMART: helix-turn-helix- domain containing protein AraC type; KEGG: sme:SMc01728 putative transcription regulator protein. (370 aa) |
| | Smed_0057 | Putative Chase2 sensor protein; PFAM: adenylyl cyclase class-3/4/guanylyl cyclase; CHASE2 domain protein; KEGG: sme:SMb20776 putative adenylate cyclase protein. (650 aa) |
| | Smed_0051 | PFAM: histidine kinase HAMP region domain protein; Cache domain protein; chemotaxis sensory transducer; KEGG: sme:SMc01104 probable chemoreceptor (methyl-accepting chemotaxis) transmembrane protein. (796 aa) |
| | mutS | DNA mismatch repair protein MutS; This protein is involved in the repair of mismatches in DNA. It is possible that it carries out the mismatch recognition step. This protein has a weak ATPase activity. (915 aa) |
| | Smed_3036 | Alkylhydroperoxidase like protein, AhpD family; Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity. Belongs to the AhpD family. (111 aa) |
| | Smed_3054 | TIGRFAM: exodeoxyribonuclease III; exodeoxyribonuclease III Xth; PFAM: Endonuclease/exonuclease/phosphatase; KEGG: sme:SMc03818 putative exodeoxyribonuclease III protein. (268 aa) |
| | Smed_3056 | Two component transcriptional regulator, winged helix family; PFAM: response regulator receiver; transcriptional regulator domain protein; KEGG: sme:SMc03820 putative transcription regulator protein. (253 aa) |
| | Smed_3112 | PFAM: transcription factor CarD; KEGG: sme:SMc03874 CarD family transcriptional regulator. (189 aa) |
| | Smed_3114 | PFAM: RNA-binding S4 domain protein; KEGG: sme:SMc03876 hypothetical heat shock-like protein. (137 aa) |
| | Smed_3115 | PFAM: helicase domain protein; KEGG: sme:SMc03877 hypothetical protein. (1026 aa) |
| | Smed_3223 | PFAM: HpcH/HpaI aldolase; KEGG: sme:SMc02778 putative hydroxyacid aldolase protein; Belongs to the HpcH/HpaI aldolase family. (266 aa) |
| | Smed_3242 | TIGRFAM: Double-strand break repair helicase AddA; PFAM: UvrD/REP helicase; KEGG: sme:SMc02760 putative ATP-dependent nuclease/helicase protein; Belongs to the helicase family. UvrD subfamily. (1189 aa) |
| | Smed_3246 | Histidine kinase; PFAM: ATP-binding region ATPase domain protein; histidine kinase A domain protein; KEGG: sme:SMc02756 putative sensor histidine kinase protein. (826 aa) |
| | Smed_3250 | HPr kinase; KEGG: sme:SMc02752 hypothetical protein. (161 aa) |
| | Smed_3251 | Integral membrane sensor signal transduction histidine kinase; PFAM: ATP-binding region ATPase domain protein; histidine kinase HAMP region domain protein; histidine kinase A domain protein; KEGG: sme:SMc04446 histidine kinase sensory transmembrane protein. (578 aa) |
| | Smed_3252 | Two component transcriptional regulator, winged helix family; PFAM: response regulator receiver; transcriptional regulator domain protein; KEGG: sme:SMc02560 transcriptional regulatory protein. (240 aa) |
| | Smed_3256 | PFAM: 2OG-Fe(II) oxygenase; KEGG: sme:SMc02566 probable DNA repair system specific for alkylated DNA protein. (203 aa) |
| | actR | Two component transcriptional regulator, Fis family; Member of the two-component regulatory system ActS/ActR acting in acid tolerance. These data implicate that a two-component sensor may be involved in pH sensing and/or response. (194 aa) |
| | Smed_3274 | Integral membrane sensor signal transduction histidine kinase; PFAM: ATP-binding region ATPase domain protein; histidine kinase A domain protein; KEGG: sme:SMc02585 sensor histidine kinase transmembrane protein. (433 aa) |
| | Smed_3280 | Two component transcriptional regulator, winged helix family; PFAM: response regulator receiver; transcriptional regulator domain protein; KEGG: sit:TM1040_3232 two component transcriptional regulator, winged helix family. (241 aa) |
| | Smed_3373 | TIGRFAM: methylated-DNA--protein-cysteine methyltransferase; PFAM: helix-turn-helix- domain containing protein AraC type; Methylated-DNA-[protein]-cysteine S-methyltransferase DNA binding; KEGG: sme:SMc02841 putative methylated-DNA--protein-cysteine methyltransferase transcription regulator. (290 aa) |
| | nth | Endonuclease III; DNA repair enzyme that has both DNA N-glycosylase activity and AP-lyase activity. The DNA N-glycosylase activity releases various damaged pyrimidines from DNA by cleaving the N-glycosidic bond, leaving an AP (apurinic/apyrimidinic) site. The AP-lyase activity cleaves the phosphodiester bond 3' to the AP site by a beta-elimination, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'- phosphate. (236 aa) |
| | polA | DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family. (1004 aa) |
| | recF | DNA replication and repair protein RecF; The RecF protein is involved in DNA metabolism; it is required for DNA replication and normal SOS inducibility. RecF binds preferentially to single-stranded, linear DNA. It also seems to bind ATP; Belongs to the RecF family. (409 aa) |
| | msrA-2 | Peptide methionine sulfoxide reductase; Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine. (217 aa) |
| | recR | Recombination protein RecR; May play a role in DNA repair. It seems to be involved in an RecBC-independent recombinational process of DNA repair. It may act with RecF and RecO. (201 aa) |
| | Smed_3468 | PFAM: glutathione-dependent formaldehyde-activating GFA; KEGG: mmr:Mmar10_0575 glutathione-dependent formaldehyde-activating, GFA. (163 aa) |
| | Smed_3491 | PFAM: protein of unknown function DUF892; KEGG: sme:SMc00371 hypothetical protein. (163 aa) |
| | Smed_3511 | PFAM: glutathione-dependent formaldehyde-activating GFA; KEGG: ret:RHE_CH01077 hypothetical protein. (138 aa) |
| | Smed_3558 | PFAM: glutathione-dependent formaldehyde-activating GFA; KEGG: sme:SMc00431 hypothetical protein. (134 aa) |
| | Smed_3568 | PFAM: FAD-dependent pyridine nucleotide-disulphide oxidoreductase; KEGG: sme:SMc01159 putative oxidoreductase protein. (301 aa) |
| | mutM | formamidopyrimidine-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. Has a preference for oxidized purines, such as 7,8-dihydro-8-oxoguanine (8-oxoG). Has AP (apurinic/apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. (306 aa) |
| | Smed_3023 | KEGG: sme:SMc03790 hypothetical protein. (318 aa) |
| | Smed_3022 | KEGG: sme:SMc03789 hypothetical protein. (471 aa) |
| | dnaE2 | DNA polymerase III, alpha subunit; DNA polymerase involved in damage-induced mutagenesis and translesion synthesis (TLS). It is not the major replicative DNA polymerase. (1116 aa) |
| | Smed_2968 | KEGG: sme:SMc03233 hypothetical protein. (462 aa) |
| | msrA | Peptide methionine sulfoxide reductase; Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine. (198 aa) |
| | Smed_2931 | KEGG: sme:SMc02491 hypothetical protein. (382 aa) |
| | Smed_2893 | TIGRFAM: PAS sensor protein; PFAM: chemotaxis sensory transducer; PAS fold-3 domain protein; PAS fold-4 domain protein; PAS fold domain protein; SMART: PAS domain containing protein; PAC repeat-containing protein; KEGG: sme:SMc03087 probable chemoreceptor (methyl-accepting chemotaxis protein). (589 aa) |
| | Smed_2892 | PFAM: CheW domain protein; KEGG: sme:SMc03090 putative chemotaxis protein. (159 aa) |
| | Smed_2885 | PFAM: adenylyl cyclase class-3/4/guanylyl cyclase; KEGG: sme:SMc03099 putative adenylate cyclase protein. (588 aa) |
| | ung | uracil-DNA glycosylase; 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. (241 aa) |
| | Smed_2804 | PFAM: ATP dependent DNA ligase domain protein; ATP dependent DNA ligase; KEGG: sme:SMc03177 DNA ligase. (537 aa) |
| | Smed_2798 | PFAM: Integral membrane protein TerC; KEGG: sme:SMc03171 hypothetical protein. (251 aa) |
| | Smed_2768 | SMART: WD-40 repeat protein; KEGG: sme:SMc02979 hypothetical protein. (329 aa) |
| | Smed_2756 | Putative adenylate/guanylate cyclase; PFAM: adenylyl cyclase class-3/4/guanylyl cyclase; KEGG: sme:SMc03937 putative adenylate/guanylate cyclase protein. (406 aa) |
| | Smed_2724 | PFAM: glutathione-dependent formaldehyde-activating GFA; KEGG: sme:SMc04046 hypothetical protein. (134 aa) |
| | Smed_2719 | PFAM: response regulator receiver; KEGG: sme:SMc04044 putative 2-component receiver domain protein. (120 aa) |
| | Smed_2709 | PFAM: protein of unknown function DUF459; KEGG: sme:SMc04025 hypothetical protein. (416 aa) |
| | Smed_2683 | Two component, sigma54 specific, transcriptional regulator, Fis family; PFAM: response regulator receiver; sigma-54 factor interaction domain-containing protein; helix-turn-helix Fis-type; ATPase associated with various cellular activities AAA_5; SMART: AAA ATPase; KEGG: sme:SMc04011 putative sigma-54-dependent transcription regulator protein. (549 aa) |
| | Smed_2656 | PFAM: adenylyl cyclase class-3/4/guanylyl cyclase; TPR repeat-containing protein; Tetratricopeptide TPR_4; Tetratricopeptide TPR_2 repeat protein; SMART: Tetratricopeptide domain protein; KEGG: sme:SMc03985 probable adenylate/guanylate cyclase protein. (634 aa) |
| | ruvC | Crossover junction endodeoxyribonuclease RuvC; Nuclease that resolves Holliday junction intermediates in genetic recombination. Cleaves the cruciform structure in supercoiled DNA by nicking to strands with the same polarity at sites symmetrically opposed at the junction in the homologous arms and leaves a 5'-terminal phosphate and a 3'-terminal hydroxyl group. (167 aa) |
| | ruvA | Holliday junction DNA helicase RuvA; The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing. RuvA stimulates, in the presence of DNA, the weak ATPase activity of RuvB. (205 aa) |
| | ruvB | Holliday junction DNA helicase RuvB; The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing. (346 aa) |
| | Smed_2631 | TIGRFAM: DNA ligase D; DNA ligase D 3'-phosphoesterase domain; DNA polymerase LigD polymerase domain; DNA polymerase LigD ligase region; PFAM: DNA primase small subunit; ATP dependent DNA ligase domain protein; ATP dependent DNA ligase; KEGG: sme:SMc03959 hypothetical protein. (865 aa) |
| | Smed_2608 | KEGG: sme:SMc00652 hypothetical protein. (220 aa) |
| | Smed_2607 | PFAM: response regulator receiver; KEGG: sme:SMc00653 putative 2-component receiver domain protein. (120 aa) |
| | Smed_2605 | Two component transcriptional regulator, winged helix family; PFAM: response regulator receiver; transcriptional regulator domain protein; KEGG: sme:SMc00654 response regulator,controls chromosomal replication initiation protein. (233 aa) |
| | Smed_2588 | PFAM: protein of unknown function DUF886; KEGG: sme:SMc00667 hypothetical protein. (197 aa) |
| | Smed_2540 | PFAM: response regulator receiver; KEGG: sme:SMc00720 putative 2-component receiver domain protein. (119 aa) |
| | Smed_2514 | PFAM: NUDIX hydrolase; KEGG: sme:SMc02448 putative mutator protein 7,8-dihydro-8-oxoguanine-triphosphatase. (135 aa) |
| | Smed_2525 | PFAM: HhH-GPD family protein; KEGG: sme:SMc00736 putative DNA-3-methyladenine glycosidase II protein. (215 aa) |
| | Smed_2509 | Glutaredoxin 3; Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins. (85 aa) |
| | Smed_2496 | PFAM: Siderophore-interacting protein; FAD-binding 9 siderophore-interacting domain protein; KEGG: pde:Pden_4240 FAD-binding 9, siderophore-interacting domain protein. (333 aa) |
| | Smed_2434 | KEGG: jan:Jann_2415 hypothetical protein. (178 aa) |
| | Smed_2403 | PFAM: NADPH-dependent FMN reductase; KEGG: sme:SMc01960 putative oxidoreductase protein. (185 aa) |
| | Smed_2399 | KEGG: sme:SMc01953 putative 2-component receiver domain protein. (128 aa) |
| | Smed_2381 | Peroxiredoxin; Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides; Belongs to the peroxiredoxin family. Prx5 subfamily. (179 aa) |
| | Smed_2364 | Putative adenylate/guanylate cyclase; PFAM: ferredoxin; adenylyl cyclase class-3/4/guanylyl cyclase; KEGG: sme:SMc01818 putative adenylate cyclase transmembrane protein. (558 aa) |
| | Smed_2347 | RNA polymerase, sigma-24 subunit, ECF subfamily; PFAM: response regulator receiver; Sigma-70 region 4 type 2; KEGG: sme:SMc01504 two-component response regulator. (264 aa) |
| | Smed_2342 | KEGG: sme:SMc01509 hypothetical protein. (120 aa) |
| | Smed_2254 | PFAM: protein of unknown function DUF152; KEGG: sme:SMc02683 conserved hypothetical protein; Belongs to the multicopper oxidase YfiH/RL5 family. (264 aa) |
| | Smed_2246 | Integral membrane sensor signal transduction histidine kinase; PFAM: ATP-binding region ATPase domain protein; histidine kinase HAMP region domain protein; histidine kinase A domain protein; KEGG: sme:SMc01595 putative sensor histidine kinase transmembrane protein. (472 aa) |
| | Smed_2245 | Two component transcriptional regulator, winged helix family; PFAM: response regulator receiver; transcriptional regulator domain protein; KEGG: sme:SMc01593 putative transcription regulator protein. (233 aa) |
| | Smed_2226 | TIGRFAM: ATP-dependent DNA helicase, RecQ family; ATP-dependent DNA helicase RecQ; PFAM: helicase domain protein; HRDC domain protein; DEAD/DEAH box helicase domain protein; SMART: DEAD-like helicases; KEGG: sme:SMc01566 probable ATP-dependent DNA helicase protein. (647 aa) |
| | Smed_2216 | PFAM: protein of unknown function DUF541; KEGG: sme:SMc01556 hypothetical protein. (264 aa) |
| | Smed_2213 | Transcriptional regulator, SARP family; KEGG: sme:SMc01543 hypothetical protein. (612 aa) |
| | Smed_2128 | PFAM: iron-containing alcohol dehydrogenase; KEGG: sme:SMc01582 putative alcohol dehydrogenase protein. (381 aa) |
| | Smed_2071 | DNA repair protein RecN; May be involved in recombinational repair of damaged DNA. (557 aa) |
| | ligA | DNA ligase, NAD-dependent; DNA ligase that 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. It is essential for DNA replication and repair of damaged DNA. (717 aa) |
| | Smed_2051 | PFAM: histidine kinase HAMP region domain protein; chemotaxis sensory transducer; KEGG: sme:SMc01469 probable methyl accepting chemotaxis transmembrane protein. (717 aa) |
| | Smed_2050 | PFAM: CheW domain protein; KEGG: sme:SMc01468 probable chemotaxis protein. (154 aa) |
| | Smed_2036 | Alkylhydroperoxidase like protein, AhpD family; Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity. Belongs to the AhpD family. (143 aa) |
| | Smed_1991 | SMART: adenylyl cyclase class-3/4/guanylyl cyclase; KEGG: sme:SMc01491 conserved hypothetical protein. (1023 aa) |
| | Smed_1960 | KEGG: sme:SMc04343 putative adenylate/guanylate cyclase transmembrane protein. (317 aa) |
| | Smed_1942 | PFAM: TPR repeat-containing protein; Tetratricopeptide TPR_2 repeat protein; SMART: Tetratricopeptide domain protein; KEGG: sme:SMc04292 probable adenylate/guanylate cyclase protein. (626 aa) |
| | Smed_1840 | PFAM: glutathione-dependent formaldehyde-activating GFA; KEGG: sme:SMc04188 hypothetical protein. (113 aa) |
| | Smed_1802 | PFAM: protein of unknown function DUF924; KEGG: sme:SMc04178 hypothetical protein. (187 aa) |
| | Smed_1801 | PFAM: glutathione-dependent formaldehyde-activating GFA; KEGG: sme:SMc04177 hypothetical protein. (153 aa) |
| | Smed_1799 | PFAM: Integral membrane protein TerC; KEGG: sme:SMc04175 putative transmembrane protein. (212 aa) |
| | Smed_1795 | PFAM: response regulator receiver; KEGG: sme:SMc04170 putative two 2-component receiver domains protein. (274 aa) |
| | Smed_1763 | Putative Chase2 sensor protein; PFAM: adenylyl cyclase class-3/4/guanylyl cyclase; CHASE2 domain protein; KEGG: sme:SMc04307 putative adenylate/guanylate cyclase transmembrane protein. (725 aa) |
| | Smed_1709 | KEGG: sme:SMc04246 hypothetical transmembrane signal peptide protein. (134 aa) |
| | Smed_1683 | Sterile alpha motif SAM protein; PFAM: adenylyl cyclase class-3/4/guanylyl cyclase; sterile alpha motif SAM protein; Sterile alpha motif homology 2; KEGG: sme:SMa1591 putative adenylate cyclase. (1122 aa) |
| | Smed_1679 | Hypothetical protein; KEGG: mkm:Mkms_2959 HNH endonuclease. (121 aa) |
| | uvrB | Excinuclease ABC, B subunit; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. Upon binding of the UvrA(2)B(2) complex to a putative damaged site, the DNA wraps around one UvrB monomer. DNA wrap is dependent on ATP binding by UvrB and probably causes local melting of the DNA helix, facilitating insertion of UvrB beta-hairpin between the DNA strands. Then UvrB probes one DNA strand for the presence of a lesion. If a lesion is found the UvrA subunits dissociate [...] (978 aa) |
| | Smed_1613 | PFAM: histidine kinase HAMP region domain protein; chemotaxis sensory transducer; Cache type 2 domain protein; KEGG: sme:SMc04227 probable chemoreceptor (methyl-accepting chemotaxis) transmembrane protein. (603 aa) |
| | Smed_1600 | Integral membrane sensor signal transduction histidine kinase; PFAM: ATP-binding region ATPase domain protein; histidine kinase A domain protein; KEGG: sme:SMc04212 putative sensor histidine kinase transmembrane protein. (511 aa) |
| | Smed_1598 | PFAM: Uracil-DNA glycosylase superfamily; KEGG: sme:SMc04210 hypothetical protein. (217 aa) |
| | Smed_1571 | Glutathione-disulfide reductase; Maintains high levels of reduced glutathione. (463 aa) |
| | Smed_1569 | PFAM: glutathione-dependent formaldehyde-activating GFA; KEGG: sme:SMc00156 hypothetical protein. (135 aa) |
| | Smed_1537 | PFAM: Hpt domain protein; KEGG: sme:SMc00191 hypothetical protein. (122 aa) |
| | Smed_1525 | Multi-sensor hybrid histidine kinase; TIGRFAM: PAS sensor protein; PFAM: response regulator receiver; ATP-binding region ATPase domain protein; histidine kinase A domain protein; PAS fold-4 domain protein; SMART: PAS domain containing protein; KEGG: sme:SMc00471 putative sensor histidine kinase transmembrane protein. (872 aa) |
| | recA | recA protein; Can catalyze 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. It interacts with LexA causing its activation and leading to its autocatalytic cleavage; Belongs to the RecA family. (361 aa) |
| | Smed_1480 | PFAM: TfoX domain protein; KEGG: sme:SMc00520 hypothetical protein. (105 aa) |
| | Smed_1475 | PFAM: alkyl hydroperoxide reductase/ Thiol specific antioxidant/ Mal allergen; Redoxin domain protein; KEGG: sme:SMc00524 putative bacterioferritin comigratory protein. (155 aa) |
| | Smed_1452 | TIGRFAM: single-stranded-DNA-specific exonuclease RecJ; PFAM: phosphoesterase RecJ domain protein; phosphoesterase DHHA1; KEGG: sme:SMc00292 probable single-stranded-DNA-specific exonuclease protein. (600 aa) |
| | ku-2 | Ku family containing protein; With LigD forms a non-homologous end joining (NHEJ) DNA repair enzyme, which repairs dsDNA breaks with reduced fidelity. Binds linear dsDNA with 5'- and 3'- overhangs but not closed circular dsDNA nor ssDNA. Recruits and stimulates the ligase activity of LigD. Belongs to the prokaryotic Ku family. (271 aa) |
| | ku | Ku family containing protein; With LigD forms a non-homologous end joining (NHEJ) DNA repair enzyme, which repairs dsDNA breaks with reduced fidelity. Binds linear dsDNA with 5'- and 3'- overhangs but not closed circular dsDNA nor ssDNA. Recruits and stimulates the ligase activity of LigD. Belongs to the prokaryotic Ku family. (294 aa) |
| | recG | ATP-dependent DNA helicase RecG; Critical role in recombination and DNA repair. Helps process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3'- to 5'- polarity. Unwinds branched duplex DNA (Y- DNA); Belongs to the helicase family. RecG subfamily. (701 aa) |
| | mfd | Transcription-repair coupling factor; Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site; In the C-terminal section; belongs to the helicase family. RecG subfamily. (1171 aa) |
| | Smed_1358 | PFAM: beta-lactamase domain protein; KEGG: aba:Acid345_3957 beta-lactamase-like. (687 aa) |
| | lexA | SOS-response transcriptional repressor, LexA; Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair. (238 aa) |
| | Smed_1305 | TIGRFAM: DNA polymerase LigD ligase region; PFAM: ATP dependent DNA ligase domain protein; ATP dependent DNA ligase; KEGG: sme:SMb20912 putative ATP-dependent DNA ligase protein. (343 aa) |
| | Smed_1277 | PFAM: glutathione-dependent formaldehyde-activating GFA; KEGG: pde:Pden_2817 glutathione-dependent formaldehyde-activating, GFA. (130 aa) |
| | Smed_1248 | TIGRFAM: thioredoxin reductase; PFAM: FAD-dependent pyridine nucleotide-disulphide oxidoreductase; KEGG: sme:SMc01224 probable thioredoxin reductase protein. (324 aa) |
| | Smed_1245 | PFAM: NADH:flavin oxidoreductase/NADH oxidase; KEGG: sme:SMc01227 putative glycerol trinitrate (GTN) reductase protein. (373 aa) |
| | Smed_1236 | Single-strand binding protein; Plays an important role in DNA replication, recombination and repair. Binds to ssDNA and to an array of partner proteins to recruit them to their sites of action during DNA metabolism. (170 aa) |
| | uvrA | Excinuclease ABC, A subunit; 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. (973 aa) |
| | Smed_1154 | TIGRFAM: exodeoxyribonuclease III; exodeoxyribonuclease III Xth; PFAM: Endonuclease/exonuclease/phosphatase; KEGG: sme:SMc02077 putative exodeoxyribonuclease III protein. (263 aa) |
| | Smed_1145 | PFAM: ComEC/Rec2-related protein; KEGG: sme:SMc02086 hypothetical protein. (799 aa) |
| | Smed_1092 | Two component, sigma54 specific, transcriptional regulator, Fis family; PFAM: response regulator receiver; sigma-54 factor interaction domain-containing protein; helix-turn-helix Fis-type; SMART: AAA ATPase; KEGG: sme:SMc01045 probable nitrogen regulation protein. (454 aa) |
| | Smed_1091 | Multi-sensor signal transduction histidine kinase; TIGRFAM: PAS sensor protein; PFAM: ATP-binding region ATPase domain protein; histidine kinase HAMP region domain protein; histidine kinase A domain protein; KEGG: sme:SMc01044 probable nitrogen regulation transmembrane protein. (757 aa) |
| | ntrC | Nitrogen metabolism transcriptional regulator, NtrC, Fis Family; Member of the two-component regulatory system NtrB/NtrC, which controls expression of the nitrogen-regulated (ntr) genes in response to nitrogen limitation. Phosphorylated NtrC binds directly to DNA and stimulates the formation of open promoter-sigma54-RNA polymerase complexes. (484 aa) |
| | Smed_1089 | Signal transduction histidine kinase, nitrogen specific, NtrB; PFAM: ATP-binding region ATPase domain protein; histidine kinase A domain protein; PAS fold domain protein; KEGG: sme:SMc01042 nitrogen regulation protein. (380 aa) |
| | Smed_1029 | PFAM: SpoVR family protein; KEGG: sme:SMc01265 hypothetical protein. (513 aa) |
| | Smed_1021 | S-formylglutathione hydrolase; Serine hydrolase involved in the detoxification of formaldehyde. (277 aa) |
| | PleD | TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; response regulator receiver; KEGG: sme:SMc01370 putative transcription regulator (with tandem N-terminal response regulator domains) protein. (455 aa) |
| | Smed_0925 | PFAM: response regulator receiver; KEGG: sme:SMc01371 putative 2-component receiver domain protein. (123 aa) |
| | dinB | DNA-directed DNA polymerase; Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII. (430 aa) |
| | DnaE | KEGG: sme:SMc01375 probable DNA polymerase III, alpha chain protein; TIGRFAM: DNA polymerase III, alpha subunit; PFAM: PHP domain protein; nucleic acid binding OB-fold tRNA/helicase-type; DNA polymerase III alpha subunit; SMART: phosphoesterase PHP domain protein. (1165 aa) |
| | lon | ATP-dependent protease La; ATP-dependent serine protease that mediates the selective degradation of mutant and abnormal proteins as well as certain short- lived regulatory proteins. Required for cellular homeostasis and for survival from DNA damage and developmental changes induced by stress. Degrades polypeptides processively to yield small peptide fragments that are 5 to 10 amino acids long. Binds to DNA in a double-stranded, site-specific manner. (806 aa) |
| | Smed_0843 | PFAM: Carboxymuconolactone decarboxylase; KEGG: sme:SMa0559 4-carboxymuconolactone decarboxylase, putative. (259 aa) |
| | uvrC | Excinuclease ABC, C subunit; 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. (674 aa) |
| | radA | DNA repair protein RadA; DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function. (467 aa) |
| | Smed_0716 | PFAM: glutathione-dependent formaldehyde-activating GFA; KEGG: sme:SMc02548 hypothetical protein. (166 aa) |
| | Smed_0715 | PFAM: glutathione-dependent formaldehyde-activating GFA; KEGG: sme:SMc02549 hypothetical protein. (159 aa) |
| | Smed_0714 | PFAM: glutathione-dependent formaldehyde-activating GFA; KEGG: sme:SMc02550 hypothetical protein. (160 aa) |
| | Smed_0711 | PFAM: protein of unknown function DUF159; KEGG: sme:SMc02553 hypothetical protein; Belongs to the SOS response-associated peptidase family. (256 aa) |
| | Smed_0702 | Superoxide dismutase copper/zinc binding; Destroys radicals which are normally produced within the cells and which are toxic to biological systems. Belongs to the Cu-Zn superoxide dismutase family. (172 aa) |
| | recO | DNA repair protein RecO; Involved in DNA repair and RecF pathway recombination. (249 aa) |
| | Smed_0641 | Multi-sensor signal transduction histidine kinase; KEGG: sme:SMc02369 putative sensor histidine kinase transmembrane protein; TIGRFAM: PAS sensor protein; PFAM: ATP-binding region ATPase domain protein; histidine kinase A domain protein; PAS fold-3 domain protein; SMART: PAC repeat-containing protein. (772 aa) |
| | Smed_0639 | Integral membrane sensor signal transduction histidine kinase; PFAM: ATP-binding region ATPase domain protein; histidine kinase HAMP region domain protein; histidine kinase A domain protein; KEGG: sme:SMc02367 putative sensor histidine kinase transmembrane protein. (465 aa) |
| | Smed_0638 | Two component transcriptional regulator, winged helix family; PFAM: response regulator receiver; transcriptional regulator domain protein; KEGG: sme:SMc02366 putative transcription regulator protein. (233 aa) |
| | Smed_0631 | Integral membrane sensor signal transduction histidine kinase; PFAM: ATP-binding region ATPase domain protein; histidine kinase HAMP region domain protein; histidine kinase A domain protein; KEGG: sme:SMc00129 probable sensor histidine kinase protein. (461 aa) |
| | Smed_0630 | Two component transcriptional regulator, winged helix family; PFAM: response regulator receiver; transcriptional regulator domain protein; KEGG: sme:SMc00458 probable transcription regulator protein. (223 aa) |
| | Smed_0629 | KEGG: sme:SMc00065 conserved hypothetical signal peptide protein. (83 aa) |
| | Smed_0622 | KEGG: sme:SMc00063 hypothetical protein. (100 aa) |
| | Smed_0617 | Histidine kinase; PFAM: ATP-binding region ATPase domain protein; histidine kinase A domain protein; KEGG: sme:SMc00059 putative sensor histidine kinase protein. (525 aa) |
| | Smed_0587 | Superoxide dismutase; Destroys radicals which are normally produced within the cells and which are toxic to biological systems. Belongs to the iron/manganese superoxide dismutase family. (200 aa) |
| | Smed_0543 | A/G-specific adenine glycosylase; Adenine glycosylase active on G-A mispairs. (370 aa) |
| | Smed_0530 | Redoxin domain protein; Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides; Belongs to the peroxiredoxin family. Prx5 subfamily. (161 aa) |
| | Smed_0504 | PFAM: protein of unknown function DUF1006; KEGG: sme:SMc00961 hypothetical protein. (399 aa) |
| | Smed_0489 | PFAM: histidine kinase HAMP region domain protein; Cache domain protein; chemotaxis sensory transducer; KEGG: sme:SMc00975 probable chemoreceptor (methyl-accepting chemotaxis) transmembrane protein. (698 aa) |
| | Smed_0472 | TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; EAL domain protein; KEGG: sme:SMc00992 hypothetical protein. (742 aa) |
| | Smed_0452 | PFAM: Radical SAM domain protein; SMART: Elongator protein 3/MiaB/NifB; KEGG: sme:SMc00866 hypothetical protein. (385 aa) |
| | Smed_0430 | TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; EAL domain protein; KEGG: sme:SMc00887 hypothetical protein. (449 aa) |
| | mutL | DNA mismatch repair protein MutL; This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a 'molecular matchmaker', a protein that 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. (605 aa) |
| | Smed_0399 | PFAM: methyladenine glycosylase; KEGG: sme:SMc00923 probable DNA-3-methyladenine glycosylase I protein. (211 aa) |
| | Smed_0383 | PFAM: Catalase domain protein; KEGG: sme:SMc00819 catalase hydroperoxidase HPII(III) protein. (494 aa) |
| | Smed_0354 | KEGG: sme:SMc00804 hypothetical protein. (413 aa) |
| | Smed_0337 | RNA polymerase, sigma-24 subunit, ECF subfamily; PFAM: response regulator receiver; Sigma-70 region 4 type 2; KEGG: sme:SMc00794 two-component response regulator. (265 aa) |
| | Smed_0318 | TIGRFAM: PAS sensor protein; PFAM: ATP-binding region ATPase domain protein; histidine kinase A domain protein; PAS fold domain protein; SMART: PAS domain containing protein; KEGG: sme:SMc00776 putative sensor histidine kinase protein. (1138 aa) |
| | Smed_0305 | PFAM: histidine kinase HAMP region domain protein; chemotaxis sensory transducer; KEGG: sme:SMc00765 probable methyl-accepting chemotaxis protein. (841 aa) |
| | Smed_0275 | Two component transcriptional regulator, winged helix family; PFAM: transcriptional regulator domain protein; KEGG: sme:SMc03046 putative transcription regulator protein. (223 aa) |
| | Smed_0254 | KEGG: sme:SMc03026 hypothetical protein. (190 aa) |
| | Smed_0239 | PFAM: response regulator receiver; KEGG: sme:SMc03011 chemotaxis regulator protein. (129 aa) |
| | cheB | Response regulator receiver modulated CheB methylesterase; Involved in chemotaxis. Part of a chemotaxis signal transduction system that modulates chemotaxis in response to various stimuli. Catalyzes the demethylation of specific methylglutamate residues introduced into the chemoreceptors (methyl-accepting chemotaxis proteins or MCP) by CheR. Also mediates the irreversible deamidation of specific glutamine residues to glutamic acid. Belongs to the CheB family. (349 aa) |
| | Smed_0236 | PFAM: CheW domain protein; KEGG: sme:SMc03008 chemotaxis protein. (158 aa) |
| | Smed_0235 | CheA signal transduction histidine kinase; PFAM: CheW domain protein; ATP-binding region ATPase domain protein; Signal transducing histidine kinase homodimeric; Hpt domain protein; KEGG: sme:SMc03007 chemotaxis protein (sensory transduction histidine kinase). (759 aa) |
| | Smed_0234 | PFAM: response regulator receiver; KEGG: sme:SMc03006 chemotaxis regulator protein. (121 aa) |
| | Smed_0232 | PFAM: chemotaxis sensory transducer; KEGG: sme:SMc03004 putative chemoreceptor (methyl-accepting chemotaxis protein). (532 aa) |
| | Smed_0215 | HPr kinase; KEGG: sme:SMc02314 hypothetical protein. (366 aa) |
| | Smed_0165 | Integral membrane sensor hybrid histidine kinase; PFAM: response regulator receiver; ATP-binding region ATPase domain protein; histidine kinase A domain protein; KEGG: sme:SMc02249 putative sensory transduction histidine kinase transmembrane protein. (1168 aa) |
| | Smed_0155 | Alkylhydroperoxidase like protein, AhpD family; Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity. Belongs to the AhpD family. (153 aa) |
