Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 120279 |
| Name | oriT_KXZD1103|unnamed1  |
| Organism | Nitrincola iocasae strain KXZD1103 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP044223 (5256..5355 [+], 100 nt) |
| oriT length | 100 nt |
| IRs (inverted repeats) | 24..31, 35..42 (TAATCGGC..GCCGATTA) |
| Location of nic site | 61..62 |
| Conserved sequence flanking the nic site |
TCCTGCCCGC |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 100 nt
>oriT_KXZD1103|unnamed1
GAATAAGGGAAAGTGAAGATAGTTAATCGGCTCCGCCGATTAGCTAACTTCACCTATCCTGCCCGCCTTACGGCGTTGTTTACACCAAGGAAAGTGTACA
GAATAAGGGAAAGTGAAGATAGTTAATCGGCTCCGCCGATTAGCTAACTTCACCTATCCTGCCCGCCTTACGGCGTTGTTTACACCAAGGAAAGTGTACA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 14973 | GenBank | WP_151059392 |
| Name | t4cp2_F5I99_RS19285_KXZD1103|unnamed1 |
UniProt ID | _ |
| Length | 845 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 845 a.a. Molecular weight: 94122.86 Da Isoelectric Point: 6.3394
>WP_151059392.1 VirB4 family type IV secretion/conjugal transfer ATPase [Nitrincola iocasae]
MIQAISFAIAVCGAALLLILFARIRAVDAELKLKKHRSKDAGLADLLNYAAVVDDGVIVCKNGAFMASWL
YKGDDNASSTDEQREMVSFRINQALAGLGNGWMVHVDAVRRPAPNYSERNTSAFPDPVSAAIDEERRQLF
EGLGAMYEGYFVLTLTWFPPLLAQRKFVELMFDDDAEVVGKKARTKGLINQFKREISGIENRLTTAVKLT
RLRGQKIVNEDGSKVTHDDFLSWLQFCVTGVSHPVQLPNNPMYMDAYIGGQEMWGGVVPKVGRKFIQVVS
IEGFPLESHPGILSALAELPVEYRWSSRFIFMDQHESIKHLDKFRKKWKQKVRGFFDQVFNTNSGNVDQD
ALTMVQDAESAIAEVNSGLVAVGYYTSVVVLMDESRDRLEQSARQVEKSINRLGFAARTETINTLDAYLG
SLPGHGVENVRRPLINTMNLADLLPTSTIWTGNADAPCPMYPPLSPALMHCVTSGSTPFRLNLHVRDLGH
TFMFGPTGAGKSTHLALIAAQLRRYAGMSIFAFDKGMSMYPLTKAVGGLHFSVGADDDRLSFCPLQYLET
KSDRAWAMEWIDTILALNGVQSTPAQRNEIAHAIVSMHESGARTLSEFSLTIQDESIREAIRQYTVDGSM
GHLLDADEDGLSLTDFTTFEIEELMNLGEKFALPVLLYLFRRIERSLKGQPAVIILDEAWLMLGHPAFRE
KIREWLKVLRKANCLVLMATQSLSDAANSGILDVIVESTATKIFLPNVYARDEDTSALYRRMGLNARQID
ILATAVPKRQYYYVSENGRRLYDLALGPLALSFVGASDKESVAAIKQLEAKYGEQWVHEWLAGRGLKLDN
YLEAA
MIQAISFAIAVCGAALLLILFARIRAVDAELKLKKHRSKDAGLADLLNYAAVVDDGVIVCKNGAFMASWL
YKGDDNASSTDEQREMVSFRINQALAGLGNGWMVHVDAVRRPAPNYSERNTSAFPDPVSAAIDEERRQLF
EGLGAMYEGYFVLTLTWFPPLLAQRKFVELMFDDDAEVVGKKARTKGLINQFKREISGIENRLTTAVKLT
RLRGQKIVNEDGSKVTHDDFLSWLQFCVTGVSHPVQLPNNPMYMDAYIGGQEMWGGVVPKVGRKFIQVVS
IEGFPLESHPGILSALAELPVEYRWSSRFIFMDQHESIKHLDKFRKKWKQKVRGFFDQVFNTNSGNVDQD
ALTMVQDAESAIAEVNSGLVAVGYYTSVVVLMDESRDRLEQSARQVEKSINRLGFAARTETINTLDAYLG
SLPGHGVENVRRPLINTMNLADLLPTSTIWTGNADAPCPMYPPLSPALMHCVTSGSTPFRLNLHVRDLGH
TFMFGPTGAGKSTHLALIAAQLRRYAGMSIFAFDKGMSMYPLTKAVGGLHFSVGADDDRLSFCPLQYLET
KSDRAWAMEWIDTILALNGVQSTPAQRNEIAHAIVSMHESGARTLSEFSLTIQDESIREAIRQYTVDGSM
GHLLDADEDGLSLTDFTTFEIEELMNLGEKFALPVLLYLFRRIERSLKGQPAVIILDEAWLMLGHPAFRE
KIREWLKVLRKANCLVLMATQSLSDAANSGILDVIVESTATKIFLPNVYARDEDTSALYRRMGLNARQID
ILATAVPKRQYYYVSENGRRLYDLALGPLALSFVGASDKESVAAIKQLEAKYGEQWVHEWLAGRGLKLDN
YLEAA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 21096..31905
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| F5I99_RS19250 (F5I99_19250) | 16492..17148 | - | 657 | WP_012537714 | quinolone resistance pentapeptide repeat protein QnrS2 | - |
| F5I99_RS19255 (F5I99_19255) | 18836..19966 | - | 1131 | WP_014579466 | plasmid replication initiator TrfA | - |
| F5I99_RS19260 (F5I99_19260) | 20015..20362 | - | 348 | WP_041646692 | single-stranded DNA-binding protein | - |
| F5I99_RS19265 (F5I99_19265) | 20461..20844 | + | 384 | WP_041646689 | transcriptional regulator | - |
| F5I99_RS19270 (F5I99_19270) | 21096..22055 | + | 960 | WP_014579515 | P-type conjugative transfer ATPase TrbB | virB11 |
| F5I99_RS19275 (F5I99_19275) | 22123..22506 | + | 384 | WP_233282143 | conjugal transfer system pilin TrbC | virB2 |
| F5I99_RS19280 (F5I99_19280) | 22509..22820 | + | 312 | WP_008929954 | conjugal transfer protein TrbD | virB3 |
| F5I99_RS19285 (F5I99_19285) | 22820..25357 | + | 2538 | WP_151059392 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| F5I99_RS19290 (F5I99_19290) | 25357..26139 | + | 783 | WP_014579511 | conjugal transfer protein TrbF | virB8 |
| F5I99_RS19295 (F5I99_19295) | 26157..27062 | + | 906 | WP_014579510 | P-type conjugative transfer protein TrbG | virB9 |
| F5I99_RS19300 (F5I99_19300) | 27065..27580 | + | 516 | WP_014579509 | conjugal transfer protein TrbH | - |
| F5I99_RS19305 (F5I99_19305) | 27584..29011 | + | 1428 | WP_151059384 | TrbI/VirB10 family protein | virB10 |
| F5I99_RS19310 (F5I99_19310) | 29030..29791 | + | 762 | WP_151059386 | P-type conjugative transfer protein TrbJ | virB5 |
| F5I99_RS19315 (F5I99_19315) | 29801..30028 | + | 228 | WP_014579506 | entry exclusion lipoprotein TrbK | - |
| F5I99_RS19320 (F5I99_19320) | 30040..31905 | + | 1866 | WP_151059388 | P-type conjugative transfer protein TrbL | virB6 |
| F5I99_RS19325 (F5I99_19325) | 31925..32407 | + | 483 | WP_014579504 | hypothetical protein | - |
| F5I99_RS19330 (F5I99_19330) | 32422..33054 | + | 633 | WP_041646732 | muramidase | - |
| F5I99_RS19335 (F5I99_19335) | 33051..33779 | + | 729 | WP_014579502 | TraX family protein | - |
| F5I99_RS19340 (F5I99_19340) | 33793..34218 | + | 426 | WP_014579501 | OmpA family protein | - |
| F5I99_RS19345 (F5I99_19345) | 34237..34506 | + | 270 | WP_014579500 | hypothetical protein | - |
| F5I99_RS19350 (F5I99_19350) | 34531..34785 | + | 255 | WP_020933254 | hypothetical protein | - |
| F5I99_RS19355 (F5I99_19355) | 34790..35296 | + | 507 | WP_014579498 | hypothetical protein | - |
| F5I99_RS19360 (F5I99_19360) | 35381..35686 | + | 306 | WP_020933256 | helix-turn-helix domain-containing protein | - |
| F5I99_RS19365 (F5I99_19365) | 35707..36330 | - | 624 | WP_049784535 | recombinase family protein | - |
| F5I99_RS19865 | 36339..36470 | - | 132 | WP_014579495 | hypothetical protein | - |
Host bacterium
| ID | 20708 | GenBank | NZ_CP044223 |
| Plasmid name | KXZD1103|unnamed1 | Incompatibility group | - |
| Plasmid size | 43759 bp | Coordinate of oriT [Strand] | 5256..5355 [+] |
| Host baterium | Nitrincola iocasae strain KXZD1103 |
Cargo genes
| Drug resistance gene | qnrS2 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |