| DNA gyrase subunit A (EC 5.99.1.3) | gyrA Fphi_1194 | B0TXG1 | 1 |
| DNA gyrase subunit A (EC 5.99.1.3) | gyrA YPO1216 | Q7CH96 | 1 |
| DNA gyrase subunit A (EC 5.99.1.3) | gyrA SF2311 S2444 | P0AES5 | 1 |
| DNA gyrase subunit A (EC 5.99.1.3) | gyrA KPR_2073 | R4Y7H5 | 1 |
| DNA gyrase subunit A (EC 5.99.1.3) | gyrA hisW nalA parD b2231 JW2225 | P0AES4 | 1 |
| DNA gyrase subunit A (EC 5.99.1.3) | gyrA VSAK1_01242 | A6D2D4 | 1 |
| DNA gyrase subunit A (EC 5.99.1.3) | gyrA SPy_1152 M5005_Spy0874 | Q9L7Q5 | 1 |
| DNA gyrase subunit A (EC 5.99.1.3) | gyrA CD630_00060 | Q18C90 | 1 |
| DNA gyrase subunit A (EC 5.99.1.3) | gyrA SAOUHSC_00006 | Q2G2Q0 | 1 |
| DNA gyrase subunit A (EC 5.99.1.3) | gyrA KU39_2235 | A0A0K2L5G7 | 1 |
| DNA gyrase subunit B (EC 5.99.1.3) | gyrB spr0715 | P0A4M0 | 1 |
| DNA gyrase subunit B (EC 5.99.1.3) | gyrB SC1083_1450 | G4A9E0 | 1 |
| DNA gyrase subunit B (EC 5.99.1.3) | gyrB KPR_0004 | R4Y6T5 | 1 |
| DNA gyrase subunit B (EC 5.99.1.3) | gyrB SPy_0727 M5005_Spy0553 | Q9A0L0 | 1 |
| DNA gyrase subunit B (EC 5.99.1.3) | gyrB Smlt0005 | B2FT83 | 1 |
| DNA helicase (EC 3.6.4.12) | pcrA spr0995 | Q8DPU8 | 1 |
| DNA helicase (EC 3.6.4.12) | uvrD VSAK1_24239 | A6D6J6 | 1 |
| DNA helicase (EC 3.6.4.12) | uvrD KW89_1150 | A0A0K2DWB9 | 1 |
| DNA ligase (EC 6.5.1.2) (Polydeoxyribonucleotide synthase [NAD(+)]) | ligA spr1024 | Q8DPS9 | 1 |
| DNA ligase (EC 6.5.1.2) (Polydeoxyribonucleotide synthase [NAD(+)]) | ligA SPy_0751 M5005_Spy0573 | Q9A0J5 | 1 |
| DNA ligase (EC 6.5.1.2) (Polydeoxyribonucleotide synthase [NAD(+)]) | ligA SAOUHSC_02122 | Q2G1Y0 | 1 |
| DNA mismatch repair protein HexA | hexA spr1888 | P0A3R4 | 1 |
| DNA mismatch repair protein MutL | mutL PA4946 | Q9HUL8 | 1 |
| DNA mismatch repair protein MutL | mutL SPy_2121 M5005_Spy1804 | Q99XN7 | 1 |
| DNA mismatch repair protein MutS | mutS SPy_2148 M5005_Spy1805 | Q99XL8 | 1 |
| DNA polymerase (EC 2.7.7.7) | Fphi_1013 | B0TWX9 | 1 |
| DNA polymerase (EC 2.7.7.7) | polA FTN_1604 | A0Q899 | 1 |
| DNA polymerase I | VSAK1_13215 | A6D2D2 | 1 |
| DNA polymerase I (EC 2.7.7.7) | polA SFV_3637 | Q0SZ48 | 1 |
| DNA polymerase I (EC 2.7.7.7) | polA SPy_0185 | Q9A1M8 | 1 |
| DNA polymerase I (EC 2.7.7.7) | polA SAOUHSC_01797 | Q2FXN9 | 1 |
| DNA polymerase I (POL I) (EC 2.7.7.7) | polA spr0032 | P59200 | 1 |
| DNA polymerase I (POL I) (EC 2.7.7.7) | polA PA5493 | Q9HT80 | 1 |
| DNA polymerase I (POL I) (EC 2.7.7.7) | polA resA b3863 JW3835 | P00582 | 1 |
| DNA polymerase III delta subunit | holA SPy_1407 | Q7DAL5 | 1 |
| DNA polymerase III PolC-type (PolIII) (EC 2.7.7.7) | polC spr0251 | Q8DRA5 | 1 |
| DNA polymerase III PolC-type (PolIII) (EC 2.7.7.7) | polC dnaF mutI BSU16580 | P13267 | 1 |
| DNA polymerase III PolC-type (PolIII) (EC 2.7.7.7) | polC SPy_1961 M5005_Spy1672 | P0C0B8 | 1 |
| DNA polymerase III subunit alpha (EC 2.7.7.7) | dnaE SPy_1284 M5005_Spy0990 | P0C0F3 | 1 |
| DNA polymerase III subunit beta (EC 2.7.7.7) | dnaN FTN_0002 | A0Q3U8 | 1 |
| DNA polymerase III subunit beta (EC 2.7.7.7) | B195_01000 | M5R582 | 1 |
| DNA polymerase III subunit beta (EC 2.7.7.7) | dnaN spr0002 | P59651 | 1 |
| DNA polymerase III subunit beta (EC 2.7.7.7) | dnaN MXAN_0236 | Q1DFQ6 | 1 |
| DNA polymerase III subunit beta (EC 2.7.7.7) | dnaN Rv0002 MTCY10H4.0 MTV029.02 | P9WNU1 | 1 |
| DNA polymerase III subunit beta (EC 2.7.7.7) | SC1083_1784 | G4AAB1 | 1 |
| DNA polymerase III subunit beta (EC 2.7.7.7) | dnaN SPy_0003 | Q9A209 | 1 |
| DNA polymerase III subunit beta (EC 2.7.7.7) (Fragment) | VSAK1_12622 | A6D7Y2 | 1 |
| DNA polymerase III subunit delta | holB KPN_01097 | A6T7F9 | 1 |
| DNA polymerase III subunit epsilon | VSAK1_13548 | A6D4K1 | 1 |
| DNA polymerase III subunit epsilon (Fragment) | VSAK1_07324 | A6D3E2 | 1 |
| DNA polymerase III subunit gamma/tau (EC 2.7.7.7) | dnaX SAOUHSC_00442 | Q2G0T5 | 1 |
| DNA polymerase III subunits gamma and tau (EC 2.7.7.7) | VSAK1_10083 | A6D0M4 | 1 |
| DNA polymerase III, delta subunit | holA spr0673 | Q8DQG8 | 1 |
| DNA polymerase IV (Pol IV) (EC 2.7.7.7) | dinB CPR_1538 | Q0SSQ2 | 1 |
| DNA polymerase subunits gamma and tau | dnaX PA1532 | Q9I3I1 | 1 |
| DNA primase (EC 2.7.7.-) | dnaG SPy_0781 | Q9A0G9 | 1 |
| DNA protection during starvation protein (EC 1.16.-.-) | dps STM0831 | Q7CQV9 | 1 |
| DNA protection during starvation protein (EC 1.16.-.-) | dps YPO2510 y1677 YP_2325 | Q7CJ65 | 1 |
| DNA protection during starvation protein (EC 1.16.-.-) | dps SF0763 S0805 | P0ABT4 | 1 |
| DNA protection during starvation protein (EC 1.16.-.-) | dps PGN_2037 | B2RMG0 | 1 |
| DNA protection during starvation protein (EC 1.16.-.-) | dps PG_0090 | P0C935 | 1 |
| DNA protection during starvation protein (EC 1.16.-.-) | dps SSON_0792 | Q3Z3X3 | 1 |
| DNA protection during starvation protein (EC 1.16.-.-) | dps SCH_0826 | Q57RC9 | 1 |
| DNA protection during starvation protein (EC 1.16.-.-) (Bacterioferritin) (HP-NAP) (Neutrophil-activating protein A) (NAP A) | dps napA HP_0243 | P43313 | 1 |
| DNA recombination protein RmuC family protein | FTT_0659 | Q5NH16 | 1 |
| DNA repair family protein | KW89_1149 | A0A0K2DVT5 | 1 |
| DNA repair protein RadA (EC 3.6.4.-) (Branch migration protein RadA) | radA sms SPy_0236 M5005_Spy0200 | Q9A1K1 | 1 |
| DNA repair protein RecN (Recombination protein N) | recN spr1084 | Q8DPN3 | 1 |
| DNA repair protein RecN (Recombination protein N) | NSU_3848 | G6EHM7 | 1 |
| DNA repair protein RecO (Recombination protein O) | recO SPy_0021 M5005_Spy0019 | P65987 | 1 |
| DNA replication and repair protein RecF | recF SPy_2204 M5005_Spy1855 | P0C0D1 | 1 |
| DNA replication terminus site-binding protein (Ter-binding protein) | tus SSON_1550 | Q3Z1W3 | 1 |
| DNA topoisomerase 1 (EC 5.99.1.2) (DNA topoisomerase I) | topA Fphi_0406 | B0TZZ5 | 1 |
| DNA topoisomerase 1 (EC 5.99.1.2) (DNA topoisomerase I) | topA FTN_0432 | A0Q520 | 1 |
| DNA topoisomerase 1 (EC 5.99.1.2) (DNA topoisomerase I) | topA FTT_0906c | Q5NGD9 | 1 |
| DNA topoisomerase 1 (EC 5.99.1.2) (DNA topoisomerase I) (Omega-protein) (Relaxing enzyme) (Swivelase) (Untwisting enzyme) | topA SAOUHSC_01222 | Q2FZ32 | 1 |
| DNA topoisomerase 3 (EC 5.99.1.2) (DNA topoisomerase III) | topB BSU04260 | P96583 | 1 |
| DNA topoisomerase 4 subunit A (EC 5.99.1.3) (Topoisomerase IV subunit A) | parC Fphi_0357 | B0TZL5 | 1 |
| DNA topoisomerase 4 subunit A (EC 5.99.1.3) (Topoisomerase IV subunit A) | parC FTN_0492 | A0Q573 | 1 |
| DNA topoisomerase 4 subunit A (EC 5.99.1.3) (Topoisomerase IV subunit A) | parC SPy_0910 M5005_Spy0712 | Q9L7Q4 | 1 |
| DNA topoisomerase 4 subunit A (EC 5.99.1.3) (Topoisomerase IV subunit A) | parC grlA SAOUHSC_01352 | Q2FYS4 | 1 |
| DNA topoisomerase 4 subunit B (EC 5.99.1.3) (Topoisomerase IV subunit B) | parE PA4967 | Q9HUJ8 | 1 |
| DNA topoisomerase 4 subunit B (EC 5.99.1.3) (Topoisomerase IV subunit B) | parE SPy_0909 | Q9A069 | 1 |
| DNA topoisomerase 4 subunit B (EC 5.99.1.3) (Topoisomerase IV subunit B) | parE grlB SAOUHSC_01351 | Q2FYS5 | 1 |
| DNA topoisomerase I (EC 5.99.1.2) | VSAK1_04027 | A6D7J0 | 1 |
| DNA topoisomerase I (EC 5.99.1.2) | VSAK1_04032 | A6D7J1 | 1 |
| DNA topoisomerase III/ATP-dependent DNA helicase, RecQ family (EC 3.6.1.-) (EC 5.99.1.2) | topB MXAN_0535 | Q1DEW9 | 1 |
| DNA topoisomerase IV subunit B | VSAK1_04795 | A6D6C2 | 1 |
| DNA translocase FtsK | ftsK AC3_2155 | B1BWW5 | 1 |
| DNA translocase FtsK | ftsK SPy_0458 M5005_Spy0372 | Q9A155 | 1 |
| DNA translocase FtsK | ftsK b0890 JW0873 | P46889 | 1 |
| DNA-binding protein | bglY YPO2175 | Q0WEY9 | 1 |
| DNA-binding protein H-NS (Heat-stable nucleoid-structuring protein) (Histone-like protein HLP-II) (Protein B1) (Protein H1) | hns bglY cur drdX hnsA msyA osmZ pilG topS b1237 JW1225 | P0ACF8 | 1 |
| DNA-binding protein H-NS (Histone-like protein HLP-II) (Protein B1) (Protein H1) | hns hnsA osmZ STM1751 | P0A1S2 | 1 |
| DNA-binding protein H-NS (Pathogenesis protein KcpA) | hns hnsA kcpA virR SF1237 S1323 | P09120 | 1 |
| DNA-binding protein HU | SC1083_2157 | G4ABC2 | 1 |
| DNA-binding protein HU | hup hlpA SPy_1489 M5005_Spy1223 | P0C0H3 | 1 |
| DNA-binding protein HU | hup_3 FSU_1282 | C9RNK1 | 1 |
| DNA-binding protein HU homolog (21 kDa laminin-2-binding protein) (28 kDa iron-regulated protein) (Irep-28) (Histone-like protein) (Hlp) | hup hlp hupB lbp21 Rv2986c MTCY349.01 | P9WMK7 | 1 |
| DNA-binding protein HU, beta subunit | B195_07530 | M5R223 | 1 |