Polaromonas naphthalenivorans CJ2 plasmid pPNAP03, complete sequence NC_008759 GI_Number Pathogen_associated Gene_name Product Synonym Number_of_Genera COG_Number COG_Description COG_Category 121583259 Common - hypothetical protein Pnap_4889 12 None None None 121583308 Common - filamentation induced by cAMP protein Fic Pnap_4940 37 COG3177 COG3177, Uncharacterized conserved protein Function unknown 121583196 Common - hypothetical protein Pnap_4825 29 COG3385 COG3385, FOG: Transposase and inactivated derivatives DNA replication, recombination, and repair 121583287 Common - restriction modification system DNA specificity domain Pnap_4917 60 COG0732 HsdS, Restriction endonuclease S subunits Defense mechanisms 121583244 Nonpathogen - hypothetical protein Pnap_4874 1 None None None 121583329 Common - DNA topoisomerase, type IA, zn finger domain protein Pnap_4962 25 COG0551 TopA, Zn-finger domain associated with topoisomerase type I DNA replication, recombination, and repair 121583204 Common - hypothetical protein Pnap_4833 3 None None None 121583229 Common - cation diffusion facilitator family transporter Pnap_4859 71 COG0053 MMT1, Predicted Co/Zn/Cd cation transporters Inorganic ion transport and metabolism 121583242 Common - histidine triad (HIT) protein Pnap_4872 192 COG0537 Hit, Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only 121583222 Common - MazG nucleotide pyrophosphohydrolase Pnap_4851 40 COG1694 MazG, Predicted pyrophosphatase General function prediction only 121583320 Common - transposase, IS4 family Pnap_4952 7 None None None 121583312 Common - protein of unknown function UPF0060 Pnap_4944 79 COG1742 COG1742, Uncharacterized conserved protein Function unknown 121583319 Common - hypothetical protein Pnap_4951 9 None None None 121583331 Nonpathogen - hypothetical protein Pnap_4964 2 None None None 121583262 Common - hypothetical protein Pnap_4892 9 None None None 121583198 Nonpathogen - hypothetical protein Pnap_4827 1 None None None 121583327 Common - hypothetical protein Pnap_4960 6 None None None 121583201 Common - hypothetical protein Pnap_4830 21 COG3598 RepA, RecA-family ATPase DNA replication, recombination, and repair 121583185 Common - hypothetical protein Pnap_4814 31 COG3673 COG3673, Uncharacterized conserved protein Function unknown 121583218 Nonpathogen - hypothetical protein Pnap_4847 1 None None None 121583298 Nonpathogen - hypothetical protein Pnap_4928 4 None None None 121583322 Common - protein kinase Pnap_4955 151 COG0515 SPS1, Serine/threonine protein kinase General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair 121583208 Nonpathogen - hypothetical protein Pnap_4837 1 None None None 121583281 Common - hypothetical protein Pnap_4911 4 None None None 121583246 Nonpathogen - hypothetical protein Pnap_4876 1 None None None 121583257 Common - transcriptional regulator, AbrB family Pnap_4887 5 COG2002 AbrB, Regulators of stationary/sporulation gene expression Transcription 121583203 Nonpathogen - hypothetical protein Pnap_4832 1 None None None 121583199 Nonpathogen - hypothetical protein Pnap_4828 1 None None None 121583260 Common - putative transcriptional regulator, XRE family Pnap_4890 2 COG1396 HipB, Predicted transcriptional regulators Transcription 121583333 Nonpathogen - hypothetical protein Pnap_4966 1 None None None 121583250 Common - hypothetical protein Pnap_4880 3 COG0629 Ssb, Single-stranded DNA-binding protein DNA replication, recombination, and repair 121583273 Nonpathogen - hypothetical protein Pnap_4903 2 None None None 121583314 Common - protein of unknown function DUF1272 Pnap_4946 24 COG3813 COG3813, Uncharacterized protein conserved in bacteria Function unknown 121583239 Common - hypothetical protein Pnap_4869 21 None None None 121583192 Common - hypothetical protein Pnap_4821 39 COG4717 COG4717, Uncharacterized conserved protein Function unknown 121583269 Common - DNA/RNA non-specific endonuclease Pnap_4899 41 COG1864 NUC1, DNA/RNA endonuclease G, NUC1 Nucleotide transport and metabolism 121583280 Common - N-6 DNA methylase Pnap_4910 21 COG0286 HsdM, Type I restriction-modification system methyltransferase subunit Defense mechanisms 121583232 Nonpathogen - hypothetical protein Pnap_4862 1 None None None 121583297 Nonpathogen - hypothetical protein Pnap_4927 5 COG1196 Smc, Chromosome segregation ATPases Cell division and chromosome partitioning 121583309 Common - hypothetical protein Pnap_4941 9 None None None 121583292 Common - hypothetical protein Pnap_4922 11 None None None 121583325 Nonpathogen - hypothetical protein Pnap_4958 1 None None None 121583241 Common - HNH nuclease Pnap_4871 11 COG1403 McrA, Restriction endonuclease Defense mechanisms 121583191 Common - hypothetical protein Pnap_4820 33 None None None 121583278 Nonpathogen - hypothetical protein Pnap_4908 2 None None None 121583216 Nonpathogen - hypothetical protein Pnap_4845 1 None None None 121583304 Common - hypothetical protein Pnap_4936 17 None None None 121583207 Nonpathogen - hypothetical protein Pnap_4836 1 None None None 121583237 Common - helix-turn-helix- domain containing protein, AraC type Pnap_4867 22 COG2207 AraC, AraC-type DNA-binding domain-containing proteins Transcription 121583213 Common - hypothetical protein Pnap_4842 29 COG3385 COG3385, FOG: Transposase and inactivated derivatives DNA replication, recombination, and repair 121583316 Common - thiopurine S-methyltransferase Pnap_4948 35 COG2518 Pcm, Protein-L-isoaspartate carboxylmethyltransferase Posttranslational modification, protein turnover, chaperones 121583225 Common - hypothetical protein Pnap_4854 15 None None None 121583187 Common - methionine aminopeptidase, type I Pnap_4816 245 COG0024 Map, Methionine aminopeptidase Translation, ribosomal structure and biogenesis 121583266 Common - DNA polymerase III, alpha subunit Pnap_4896 216 COG0587 DnaE, DNA polymerase III, alpha subunit DNA replication, recombination, and repair 121583335 Nonpathogen - hypothetical protein Pnap_4968 1 None None None 121583271 Nonpathogen - hypothetical protein Pnap_4901 1 None None None 121583306 Common - initiator RepB protein Pnap_4938 12 COG5527 COG5527, Protein involved in initiation of plasmid replication DNA replication, recombination, and repair 121583205 Common - hypothetical protein Pnap_4834 5 None None None 121583243 Common - hypothetical protein Pnap_4873 6 None None None 121583290 Common - hypothetical protein Pnap_4920 9 None None None 121583285 Nonpathogen - hypothetical protein Pnap_4915 1 None None None 121583282 Common - helicase domain protein Pnap_4912 26 None None None 121583214 Nonpathogen - hypothetical protein Pnap_4843 1 None None None 121583193 Nonpathogen - hypothetical protein Pnap_4822 1 None None None 121583230 Nonpathogen - hypothetical protein Pnap_4860 1 COG3416 COG3416, Uncharacterized protein conserved in bacteria Function unknown 121583228 Nonpathogen - protein of unknown function DUF433 Pnap_4858 5 COG2442 COG2442, Uncharacterized conserved protein Function unknown 121583221 Common - hypothetical protein Pnap_4850 6 COG5460 COG5460, Uncharacterized conserved protein Function unknown 121583337 Nonpathogen - hypothetical protein Pnap_4970 3 None None None 121583248 Common xseA exodeoxyribonuclease VII large subunit Pnap_4878 204 COG1570 XseA, Exonuclease VII, large subunit DNA replication, recombination, and repair 121583295 Nonpathogen - hypothetical protein Pnap_4925 4 None None None 121583264 Common - hypothetical protein Pnap_4894 26 COG4544 COG4544, Uncharacterized conserved protein Function unknown 121583227 Nonpathogen - hypothetical protein Pnap_4856 5 None None None 121583255 Nonpathogen - hypothetical protein Pnap_4885 1 None None None 121583211 Common - putative DNA-binding protein Pnap_4840 11 None None None 121583235 Common - hypothetical protein Pnap_4865 28 COG5579 COG5579, Uncharacterized conserved protein Function unknown 121583330 Common - hypothetical protein Pnap_4963 3 None None None 121583318 Common - hypothetical protein Pnap_4950 9 None None None 121583276 Common - pathogenesis-related protein Pnap_4906 40 COG0210 UvrD, Superfamily I DNA and RNA helicases DNA replication, recombination, and repair 121583219 Common - DNA alkylation repair enzyme-like protein Pnap_4848 36 COG4335 COG4335, DNA alkylation repair enzyme DNA replication, recombination, and repair 121583311 Nonpathogen - hypothetical protein Pnap_4943 1 None None None 121583256 Common - histone family protein nucleoid-structuring protein H-NS Pnap_4886 34 COG2916 Hns, DNA-binding protein H-NS General function prediction only 121583245 Common - hypothetical protein Pnap_4875 16 None None None 121583223 Common - hypothetical protein Pnap_4852 8 COG5395 COG5395, Predicted membrane protein Function unknown 121583251 Common - TfoX, N-terminal domain protein Pnap_4881 11 COG3070 TfoX, Regulator of competence-specific genes Transcription 121583268 Common - DNA-directed DNA polymerase Pnap_4898 47 None None None 121583332 Common - hypothetical protein Pnap_4965 2 None None None 121583263 Common - hypothetical protein Pnap_4893 10 None None None 121583300 Nonpathogen - hypothetical protein Pnap_4931 1 None None None 121583195 Nonpathogen - hypothetical protein Pnap_4824 1 None None None 121583258 Nonpathogen - hypothetical protein Pnap_4888 1 None None None 121583286 Common - N-6 DNA methylase Pnap_4916 158 COG0286 HsdM, Type I restriction-modification system methyltransferase subunit Defense mechanisms 121583274 Common - hypothetical protein Pnap_4904 5 None None None 121583186 Nonpathogen - hypothetical protein Pnap_4815 1 None None None 121583254 Nonpathogen - hypothetical protein Pnap_4884 1 None None None 121583323 Common - hypothetical protein Pnap_4956 2 None None None 121583202 Common - Silent information regulator protein Sir2 Pnap_4831 120 COG0846 SIR2, NAD-dependent protein deacetylases, SIR2 family Transcription 121583253 Nonpathogen - hypothetical protein Pnap_4883 3 None None None 121583302 Common - Cobyrinic acid a,c-diamide synthase Pnap_4933 207 COG1192 Soj, ATPases involved in chromosome partitioning Cell division and chromosome partitioning 121583272 Common - hypothetical protein Pnap_4902 17 None None None 121583334 Nonpathogen - hypothetical protein Pnap_4967 1 None None None 121583261 Common - hypothetical protein Pnap_4891 12 COG0419 SbcC, ATPase involved in DNA repair DNA replication, recombination, and repair 121583313 Nonpathogen - hypothetical protein Pnap_4945 2 None None None 121583197 Nonpathogen - hypothetical protein Pnap_4826 1 None None None 121583238 Common - Di-haem cytochrome c peroxidase Pnap_4868 94 COG1858 MauG, Cytochrome c peroxidase Inorganic ion transport and metabolism 121583296 Nonpathogen - hypothetical protein Pnap_4926 4 None None None 121583307 Common - phage integrase family protein Pnap_4939 9 COG4974 XerD, Site-specific recombinase XerD DNA replication, recombination, and repair 121583328 Common - UvrD/REP helicase Pnap_4961 218 COG0210 UvrD, Superfamily I DNA and RNA helicases DNA replication, recombination, and repair 121583209 Nonpathogen - hypothetical protein Pnap_4838 1 None None None 121583188 Common - hypothetical protein Pnap_4817 22 None None None 121583299 Nonpathogen - hypothetical protein Pnap_4930 1 None None None 121583247 Nonpathogen - hypothetical protein Pnap_4877 1 None None None 121583279 Common - protein of unknown function DUF88 Pnap_4909 53 COG1432 COG1432, Uncharacterized conserved protein Function unknown 121583224 Common - conserved hypothetical protein-signal peptide prediction Pnap_4853 8 None None None 121583321 Common - hypothetical protein Pnap_4954 2 COG2958 COG2958, Uncharacterized protein conserved in bacteria Function unknown 121583289 Nonpathogen - hypothetical protein Pnap_4919 1 COG4333 COG4333, Uncharacterized protein conserved in bacteria Function unknown 121583226 Common - hypothetical protein Pnap_4855 8 COG3550 HipA, Uncharacterized protein related to capsule biosynthesis enzymes General function prediction only 121583236 Nonpathogen - hypothetical protein Pnap_4866 2 None None None 121583212 Common - hypothetical protein Pnap_4841 2 None None None 121583336 Common - GreA/GreB family elongation factor Pnap_4969 63 COG0782 GreA, Transcription elongation factor Transcription 121583270 Common - hypothetical protein Pnap_4900 2 None None None 121583267 Nonpathogen - hypothetical protein Pnap_4897 1 None None None 121583294 Common - protein of unknown function DUF450 Pnap_4924 127 COG0610 COG0610, Type I site-specific restriction-modification system, R (restriction) subunit and related helicases Defense mechanisms 121583233 Nonpathogen - hypothetical protein Pnap_4863 1 None None None 121583283 Common - hypothetical protein Pnap_4913 8 None None None 121583288 Common - HipA domain protein Pnap_4918 65 COG3550 HipA, Uncharacterized protein related to capsule biosynthesis enzymes General function prediction only 121583217 Common - acylphosphatase Pnap_4846 98 COG1254 AcyP, Acylphosphatases Energy production and conversion 121583189 Nonpathogen - hypothetical protein Pnap_4818 1 None None None 121583293 Nonpathogen - hypothetical protein Pnap_4923 1 None None None 121583252 Common - hypothetical protein Pnap_4882 6 COG1917 COG1917, Uncharacterized conserved protein, contains double-stranded beta-helix domain Function unknown 121583301 Common - phage integrase family protein Pnap_4932 41 COG4974 XerD, Site-specific recombinase XerD DNA replication, recombination, and repair 121583200 Common - hypothetical protein Pnap_4829 3 COG1349 GlpR, Transcriptional regulators of sugar metabolism Transcription / Carbohydrate transport and metabolism 121583194 Nonpathogen - hypothetical protein Pnap_4823 1 None None None 121583326 Common - hypothetical protein Pnap_4959 3 COG2333 ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) General function prediction only 121583315 Common - 17 kDa surface antigen Pnap_4947 4 COG3134 COG3134, Predicted outer membrane lipoprotein Function unknown 121583317 Common - hypothetical protein Pnap_4949 9 None None None 121583310 Common - Lipocalin family protein Pnap_4942 58 COG3040 Blc, Bacterial lipocalin Cell envelope biogenesis, outer membrane 121583338 Nonpathogen - hypothetical protein Pnap_4971 1 None None None 121583265 Common - hypothetical protein Pnap_4895 30 None None None 121583234 Nonpathogen - hypothetical protein Pnap_4864 3 None None None 121583210 Nonpathogen - hypothetical protein Pnap_4839 1 None None None 121583277 Common - hypothetical protein Pnap_4907 34 COG3593 COG3593, Predicted ATP-dependent endonuclease of the OLD family DNA replication, recombination, and repair 121583190 Common - transposase (putative) Pnap_4819 70 COG3293 COG3293, Transposase and inactivated derivatives DNA replication, recombination, and repair 121583305 Common - transposase, IS4 family protein Pnap_4937 69 COG3293 COG3293, Transposase and inactivated derivatives DNA replication, recombination, and repair 121583324 Nonpathogen - hypothetical protein Pnap_4957 1 None None None 121583275 Nonpathogen - hypothetical protein Pnap_4905 4 None None None 121583249 Common - hypothetical protein Pnap_4879 5 COG1722 XseB, Exonuclease VII small subunit DNA replication, recombination, and repair 121583291 Common - hypothetical protein Pnap_4921 8 None None None 121583240 Nonpathogen - hypothetical protein Pnap_4870 2 None None None 121583215 Common - metallophosphoesterase Pnap_4844 33 COG1408 COG1408, Predicted phosphohydrolases General function prediction only 121583231 Nonpathogen - hypothetical protein Pnap_4861 1 None None None 121583220 Common - transcriptional regulator, XRE family Pnap_4849 12 COG1396 HipB, Predicted transcriptional regulators Transcription 121583284 Nonpathogen - hypothetical protein Pnap_4914 3 COG1502 Cls, Phosphatidylserine/phosphatidylglycerophosphate/cardioli pin synthases and related enzymes Lipid metabolism 121583303 Common - parB-like partition proteins Pnap_4934 9 COG1475 Spo0J, Predicted transcriptional regulators Transcription 121583206 Nonpathogen - hypothetical protein Pnap_4835 1 None None None 121583184 Nonpathogen - hypothetical protein Pnap_4813 1 None None None