Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 104486 |
| Name | oriT_SWHIN_97|unnamed2  |
| Organism | Shigella flexneri strain SWHIN_97 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP055072 (6559..6661 [+], 103 nt) |
| oriT length | 103 nt |
| IRs (inverted repeats) | 64..70, 73..79 (CCACCGT..ACGGTGG) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 103 nt
>oriT_SWHIN_97|unnamed2
AGCCTCGCAGAGCAGGATTCCCGTTGAGCAGCCCAGCTGCGAATAAGGGAAGGTAAAGTTGGACCACCGTTTACGGTGGGCCTACTTTACATATCCTGCCCGG
AGCCTCGCAGAGCAGGATTCCCGTTGAGCAGCCCAGCTGCGAATAAGGGAAGGTAAAGTTGGACCACCGTTTACGGTGGGCCTACTTTACATATCCTGCCCGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 3250 | GenBank | WP_050580356 |
| Name | Relaxase_HUZ91_RS24110_SWHIN_97|unnamed2 |
UniProt ID | _ |
| Length | 869 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 869 a.a. Molecular weight: 96507.42 Da Isoelectric Point: 10.4435
>WP_050580356.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacteriaceae]
MKNIKKSSFSGLADYITNPQSKQERVGVIKATNCQSQDVQDAVTEVNITQRLNTRSESDKTYHLVISFRP
GEKPSEDVLNAIEESICQSLGFGDHQRLSAVHHDTDNLHIHVAINKINPDTLTIHNPYNDYRVLAESCAY
LEKKYGLEVDNHMPTRSASENRAKDMERHSGIQSLLSWVKAECAEQLLNANSWQELHQAMRQNGLELRQK
GNGFVIAGPDGLAVKASSVDRSLSRAALEKKLGSFESSIPDTKPSRPSPEAIKQRFGSAANVKRPGDRPP
PMRENRQVHLGDVPVMQINSGKRYESKPLGSQGANTTELYGRYQSEQQRLTAARNEALRLAKVKRDRLIE
NAKRSGRLKRATIKLLKGPGVNKRYLYGLASKALGEELERANAIYKKDRQAAYDIHKRRTWADWLQFKAA
GGDDEALKTLRQRNAQQARKEANILHGDKVKKDGRIPGLKPDSVTKEGTIIYRVGESAIRDGGKRLDVSR
DAGDDGLHAALLMAKHRYGDKLTVNGSFEFKKRIVAVAAARELDVSFADPELEKLRQILTKKAAREREYI
HIPFEKRGKARQAGAMWDTEKKSWFVGPYATRDRIENFIRMNEEKDNEQRRQRYAGTERTDAGRERSGNG
NATGANEPGVTGRSTSADAGNGYGTSSSRRRTGTGDAVTTAGSQPGRSDDTRTGRSRAAEPNGERGHSKP
NVARPGRQPPPTAKNRLRAMSELGMVRIAGGSEVLLQGNVSDQLEHKTAERADQLRRDMAGAGGITTPAE
VKKPLSSAEKYINEREQKRLKGFDIPKHRGYNSTDKGLFEYAGQRKSGLETLALLKRDDEIVVMPVSDYT
ARRLSNLKVGESVTLTPSGSVRTTKGRSR
MKNIKKSSFSGLADYITNPQSKQERVGVIKATNCQSQDVQDAVTEVNITQRLNTRSESDKTYHLVISFRP
GEKPSEDVLNAIEESICQSLGFGDHQRLSAVHHDTDNLHIHVAINKINPDTLTIHNPYNDYRVLAESCAY
LEKKYGLEVDNHMPTRSASENRAKDMERHSGIQSLLSWVKAECAEQLLNANSWQELHQAMRQNGLELRQK
GNGFVIAGPDGLAVKASSVDRSLSRAALEKKLGSFESSIPDTKPSRPSPEAIKQRFGSAANVKRPGDRPP
PMRENRQVHLGDVPVMQINSGKRYESKPLGSQGANTTELYGRYQSEQQRLTAARNEALRLAKVKRDRLIE
NAKRSGRLKRATIKLLKGPGVNKRYLYGLASKALGEELERANAIYKKDRQAAYDIHKRRTWADWLQFKAA
GGDDEALKTLRQRNAQQARKEANILHGDKVKKDGRIPGLKPDSVTKEGTIIYRVGESAIRDGGKRLDVSR
DAGDDGLHAALLMAKHRYGDKLTVNGSFEFKKRIVAVAAARELDVSFADPELEKLRQILTKKAAREREYI
HIPFEKRGKARQAGAMWDTEKKSWFVGPYATRDRIENFIRMNEEKDNEQRRQRYAGTERTDAGRERSGNG
NATGANEPGVTGRSTSADAGNGYGTSSSRRRTGTGDAVTTAGSQPGRSDDTRTGRSRAAEPNGERGHSKP
NVARPGRQPPPTAKNRLRAMSELGMVRIAGGSEVLLQGNVSDQLEHKTAERADQLRRDMAGAGGITTPAE
VKKPLSSAEKYINEREQKRLKGFDIPKHRGYNSTDKGLFEYAGQRKSGLETLALLKRDDEIVVMPVSDYT
ARRLSNLKVGESVTLTPSGSVRTTKGRSR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 3172 | GenBank | WP_032310210 |
| Name | t4cp2_HUZ91_RS24100_SWHIN_97|unnamed2 |
UniProt ID | _ |
| Length | 648 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 648 a.a. Molecular weight: 71711.82 Da Isoelectric Point: 8.3842
>WP_032310210.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Enterobacteriaceae]
MRKPNNAVGPQVRNKKKTARGKLIPAMAITSLAAGIQAATQYFAYSFNYQELLGPNFNHIYAPWSYFKWY
SAWHDRLPDAFFAAGSVGATVAAGGLVLTALTSMMKANSSKANEYLHGSARWADEQDIKAAGLLGNDEGV
YVGAWEDKNGQLQYLRHNGPEHVLTYAPTRSGKGVGLVVPTLLSWKHSTVVADLKGELWAMTAGWRKEYA
KNLCLKFEPAAANGSVAWNPLDEIRVGTENEVGDVQNLATLIVDPDGKGLNDHWQKTSQALLVGVILHVL
YKHKNDGTPATLPYVDSIMADPERGAGELWMEMTQYGHVNGENHPVVGAAGRDMMDRPEEEAGSVLSTAK
SYLALFRDPVVARNVSESHFKIKDLMNHDDPVSLYIVTQPNDKARLRPLVRIMLNMIVRLLADKMEFERV
NNNLTLWQRFKQAFGFSVQGTKRVQTKKTYKHRLLAMIDEFPSLGKLEIIQESLAFLAGYGIKFYLICQD
INQLRSRETGYGPDETITSNCHVQNAYPPNRTETAEHLSKLTGQTTVIKEQITTSGKRASAILGGVSKTM
QEVQRPLLTVDECLRMPGPKKNAEGLITERGDMVVYVAGFPAIYGKQPLFFQDEIFSLRASVPEPKTTDR
IRAAVAANDDASNEAIAI
MRKPNNAVGPQVRNKKKTARGKLIPAMAITSLAAGIQAATQYFAYSFNYQELLGPNFNHIYAPWSYFKWY
SAWHDRLPDAFFAAGSVGATVAAGGLVLTALTSMMKANSSKANEYLHGSARWADEQDIKAAGLLGNDEGV
YVGAWEDKNGQLQYLRHNGPEHVLTYAPTRSGKGVGLVVPTLLSWKHSTVVADLKGELWAMTAGWRKEYA
KNLCLKFEPAAANGSVAWNPLDEIRVGTENEVGDVQNLATLIVDPDGKGLNDHWQKTSQALLVGVILHVL
YKHKNDGTPATLPYVDSIMADPERGAGELWMEMTQYGHVNGENHPVVGAAGRDMMDRPEEEAGSVLSTAK
SYLALFRDPVVARNVSESHFKIKDLMNHDDPVSLYIVTQPNDKARLRPLVRIMLNMIVRLLADKMEFERV
NNNLTLWQRFKQAFGFSVQGTKRVQTKKTYKHRLLAMIDEFPSLGKLEIIQESLAFLAGYGIKFYLICQD
INQLRSRETGYGPDETITSNCHVQNAYPPNRTETAEHLSKLTGQTTVIKEQITTSGKRASAILGGVSKTM
QEVQRPLLTVDECLRMPGPKKNAEGLITERGDMVVYVAGFPAIYGKQPLFFQDEIFSLRASVPEPKTTDR
IRAAVAANDDASNEAIAI
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 21813..32062
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HUZ91_RS24205 (HUZ91_23990) | 17142..17339 | - | 198 | WP_048207659 | DUF905 family protein | - |
| HUZ91_RS24210 | 17800..18012 | - | 213 | WP_223307920 | hypothetical protein | - |
| HUZ91_RS24215 (HUZ91_24000) | 18009..18257 | - | 249 | WP_071443967 | antirestriction protein ArdR | - |
| HUZ91_RS24220 (HUZ91_24005) | 18257..18565 | - | 309 | WP_003019666 | HigA family addiction module antitoxin | - |
| HUZ91_RS24225 (HUZ91_24010) | 18574..18873 | - | 300 | WP_071443968 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| HUZ91_RS24230 (HUZ91_24015) | 19887..20765 | - | 879 | WP_048207660 | plasmid replication initiator TrfA | - |
| HUZ91_RS24235 (HUZ91_24025) | 21155..21559 | + | 405 | WP_048207662 | transcriptional regulator | - |
| HUZ91_RS24240 (HUZ91_24030) | 21813..22700 | + | 888 | WP_003019652 | P-type conjugative transfer ATPase TrbB | virB11 |
| HUZ91_RS24245 (HUZ91_24035) | 22814..23197 | + | 384 | WP_003019650 | TrbC/VirB2 family protein | virB2 |
| HUZ91_RS24250 (HUZ91_24040) | 23200..23526 | + | 327 | WP_003019648 | conjugal transfer protein TrbD | virB3 |
| HUZ91_RS24255 (HUZ91_24045) | 23523..26066 | + | 2544 | WP_046960649 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| HUZ91_RS24260 (HUZ91_24050) | 26063..26770 | + | 708 | WP_046960648 | VirB8/TrbF family protein | virB8 |
| HUZ91_RS24265 (HUZ91_24055) | 26786..27676 | + | 891 | WP_003019641 | P-type conjugative transfer protein TrbG | virB9 |
| HUZ91_RS24270 (HUZ91_24060) | 27679..28131 | + | 453 | WP_032194780 | conjugal transfer protein TrbH | - |
| HUZ91_RS24275 (HUZ91_24065) | 28135..29529 | + | 1395 | WP_103849418 | TrbI/VirB10 family protein | virB10 |
| HUZ91_RS24280 (HUZ91_24070) | 29542..30312 | + | 771 | WP_046960647 | P-type conjugative transfer protein TrbJ | virB5 |
| HUZ91_RS24285 (HUZ91_24075) | 30325..30498 | + | 174 | WP_024252956 | entry exclusion lipoprotein TrbK | - |
| HUZ91_RS24290 (HUZ91_24080) | 30503..32062 | + | 1560 | WP_059327623 | P-type conjugative transfer protein TrbL | virB6 |
| HUZ91_RS24295 (HUZ91_24085) | 32073..32378 | + | 306 | WP_032310194 | lipoprotein | - |
| HUZ91_RS24300 (HUZ91_24090) | 32394..33164 | + | 771 | WP_048207671 | conjugal transfer protein | - |
| HUZ91_RS24305 (HUZ91_24095) | 33181..33867 | + | 687 | WP_053065212 | TraX family protein | - |
| HUZ91_RS24310 (HUZ91_24100) | 34096..35775 | + | 1680 | WP_003465068 | DDE-type integrase/transposase/recombinase | - |
| HUZ91_RS24315 (HUZ91_24105) | 35778..36686 | + | 909 | WP_003465065 | TniB family NTP-binding protein | - |
Host bacterium
| ID | 4925 | GenBank | NZ_CP055072 |
| Plasmid name | SWHIN_97|unnamed2 | Incompatibility group | IncP1 |
| Plasmid size | 52399 bp | Coordinate of oriT [Strand] | 6559..6661 [+] |
| Host baterium | Shigella flexneri strain SWHIN_97 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |