Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100339 |
| Name | oriT_SAP079A  |
| Organism | Staphylococcus aureus |
| Sequence Completeness | core |
| NCBI accession of oriT (coordinates [strand]) | NC_013342 (21643..21678 [+], 36 nt) |
| oriT length | 36 nt |
| IRs (inverted repeats) | 4..10, 14..20 (GCGAACG..CGTTCGC) |
| Location of nic site | 31..32 |
| Conserved sequence flanking the nic site |
TAAGTGCGCC|CT |
| Note | predicted by the oriTfinder |
oriT sequence
Download Length: 36 nt
>oriT_SAP079A
CACGCGAACGGAACGTTCGCATAAGTGCGCCCTTAC
CACGCGAACGGAACGTTCGCATAAGTGCGCCCTTAC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 410 | GenBank | YP_006938483 |
| Name | Nickase_SAP079A |
UniProt ID | O87361 |
| Length | 665 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 665 a.a. Molecular weight: 78908.86 Da Isoelectric Point: 5.3910
>YP_006938483.1 oriT nickase (plasmid) [Staphylococcus aureus]
MAMYHFQNKFVSKANGQSATAKSAYNSASRIKDFKENEFKDYSNKQCDYSEILLPNNADDKFKDREYLWN
KVHDVENRKNSQVAREIIIGLPNEFDPNSNIELAKEFAESLSNEGMIVDLNIHKINEENPHAHLLCTLRG
LDKNNEFEPKRKGNDYIRDWNTKEKHNEWRKRWENVQNKHLEKNGFSVRVSADSYKNQNIDLEPTKKEGW
KARKFEDETGKKSSISKHNESIKKRNQQKIDKMFNEVDDMKSHKLNAFSYMNKSDSTTLKNMAKDLKIYV
TPINMYKENERLYDLKQKTSLITDDEDRLNKIEDIEDRQKKLESINEVFEKQAGIFFDKNYPDQSLNYSD
DEKIFITRTILNDRDVLPANNELEDIVKEKRIKEAQISLNTVLGNRDISLESIEKESNFFADKLSNILEK
NNLSFDDVLENKHEGMEDSLKIDYYTNKLEVFRNAENILEDYYDVQIKELFTDDEDYKAFNEVTDIKEKQ
QLIDFKTYHGTENTIEMLETGNFIPKYSDEDRKYITEQVKLLQEKEFKPNKNQHDKFVFGAIQKKLLSEY
DFDYSDNNDLKHLYQESNEVGDEISKDNIEEFYEGNDILVDKETYNNYNRKQQAYGLINAGLDSMIFNFN
EIFRERMPKYINHQYKGKNHSKQRHELKNKRGMHL
MAMYHFQNKFVSKANGQSATAKSAYNSASRIKDFKENEFKDYSNKQCDYSEILLPNNADDKFKDREYLWN
KVHDVENRKNSQVAREIIIGLPNEFDPNSNIELAKEFAESLSNEGMIVDLNIHKINEENPHAHLLCTLRG
LDKNNEFEPKRKGNDYIRDWNTKEKHNEWRKRWENVQNKHLEKNGFSVRVSADSYKNQNIDLEPTKKEGW
KARKFEDETGKKSSISKHNESIKKRNQQKIDKMFNEVDDMKSHKLNAFSYMNKSDSTTLKNMAKDLKIYV
TPINMYKENERLYDLKQKTSLITDDEDRLNKIEDIEDRQKKLESINEVFEKQAGIFFDKNYPDQSLNYSD
DEKIFITRTILNDRDVLPANNELEDIVKEKRIKEAQISLNTVLGNRDISLESIEKESNFFADKLSNILEK
NNLSFDDVLENKHEGMEDSLKIDYYTNKLEVFRNAENILEDYYDVQIKELFTDDEDYKAFNEVTDIKEKQ
QLIDFKTYHGTENTIEMLETGNFIPKYSDEDRKYITEQVKLLQEKEFKPNKNQHDKFVFGAIQKKLLSEY
DFDYSDNNDLKHLYQESNEVGDEISKDNIEEFYEGNDILVDKETYNNYNRKQQAYGLINAGLDSMIFNFN
EIFRERMPKYINHQYKGKNHSKQRHELKNKRGMHL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| PDB | 4HTE | |
| AlphaFold DB | O87361 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 30369..41590
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HHF58_RS00140 (SAP079A_027) | 25735..26409 | + | 675 | WP_001106022 | IS6-like element IS257 family transposase | - |
| HHF58_RS00145 (SAP079A_028) | 26738..27508 | - | 771 | WP_001795128 | aminoglycoside O-nucleotidyltransferase ANT(4')-Ia | - |
| HHF58_RS00150 (SAP079A_029) | 27668..27814 | - | 147 | WP_001817822 | hypothetical protein | - |
| HHF58_RS00155 (SAP079A_030) | 27858..28532 | + | 675 | WP_001106019 | IS6-like element IS257 family transposase | - |
| HHF58_RS00160 (SAP079A_031) | 28641..28829 | - | 189 | WP_001063224 | hypothetical protein | - |
| HHF58_RS00165 (SAP079A_032) | 29001..29975 | + | 975 | WP_000368849 | conjugative transfer protein TrsA | - |
| HHF58_RS00170 (SAP079A_033) | 29992..30309 | + | 318 | WP_000591622 | CagC family type IV secretion system protein | - |
| HHF58_RS00175 (SAP079A_034) | 30369..30776 | + | 408 | WP_000110157 | hypothetical protein | trsC |
| HHF58_RS00180 (SAP079A_035) | 30763..31446 | + | 684 | WP_000979860 | TrsD/TraD family conjugative transfer protein | trsD |
| HHF58_RS00185 (SAP079A_036) | 31461..33479 | + | 2019 | WP_001795400 | DUF87 domain-containing protein | virb4 |
| HHF58_RS00190 (SAP079A_037) | 33491..34771 | + | 1281 | WP_000702361 | membrane protein | trsF |
| HHF58_RS00195 (SAP079A_038) | 34789..35865 | + | 1077 | WP_000269385 | CHAP domain-containing protein | trsG |
| HHF58_RS00200 (SAP079A_039) | 35875..36360 | + | 486 | WP_000735569 | TrsH/TraH family protein | - |
| HHF58_RS00205 (SAP079A_040) | 36376..38478 | + | 2103 | WP_001094109 | DNA topoisomerase III | - |
| HHF58_RS00210 (SAP079A_041) | 38494..38958 | + | 465 | WP_000715273 | hypothetical protein | trsJ |
| HHF58_RS00215 (SAP079A_042) | 38955..40595 | + | 1641 | WP_000209436 | VirD4-like conjugal transfer protein, CD1115 family | - |
| HHF58_RS00220 (SAP079A_043) | 40673..41590 | + | 918 | WP_000383804 | conjugal transfer protein TrbL family protein | trsL |
| HHF58_RS00225 (SAP079A_044) | 41607..41999 | + | 393 | WP_000608970 | single-stranded DNA-binding protein | - |
| HHF58_RS00230 (SAP079A_045) | 42056..42223 | + | 168 | WP_000869301 | hypothetical protein | - |
| HHF58_RS00235 (SAP079A_046) | 42261..42935 | + | 675 | WP_001105984 | IS6-like element IS257 family transposase | - |
| HHF58_RS00240 (SAP079A_047) | 43039..43962 | + | 924 | WP_001579520 | protein rep | - |
| HHF58_RS00245 (SAP079A_048) | 44495..44716 | - | 222 | WP_000799767 | hypothetical protein | - |
| HHF58_RS00250 (SAP079A_049) | 44948..45271 | - | 324 | WP_001146389 | quaternary ammonium compound efflux SMR transporter QacC | - |
| HHF58_RS00255 (SAP079A_050) | 45579..45809 | + | 231 | WP_000956386 | hypothetical protein | - |
| HHF58_RS00260 (SAP079A_051) | 45839..46513 | + | 675 | WP_001105984 | IS6-like element IS257 family transposase | - |
Host bacterium
| ID | 800 | GenBank | NC_013342 |
| Plasmid name | SAP079A | Incompatibility group | _ |
| Plasmid size | 47322 bp | Coordinate of oriT [Strand] | 21643..21678 [+] |
| Host baterium | Staphylococcus aureus |
Cargo genes
| Drug resistance gene | resistance to trimethoprim, vancomycin, macrolides-lincosamides-streptogramins, and bleomycin; beta-Lactams |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |